Proteopedia - User contributions [en]

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-09T04:49:31Z

Ondrej Cehlar: /* Summary */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized (by our group) in complex with the terminal hexapeptide <Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serves as a mold and gives us insight into the structure of tau protein' /><scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau mainly in association kinetics.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-09T04:47:52Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-09T04:47:36Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized (by our group)in complex with the terminal hexapeptide <Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serves as a mold and gives us insight into the structure of tau protein' /><scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T21:45:29Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide <Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serves as a mold and gives us insight into the structure of tau protein' /><scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T21:16:03Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide <Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serving as a mold gives us insight into the structure of tau protein' /><scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T21:14:42Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide <Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serving as a mold to determine the structure of tau protein' /><scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T21:12:42Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide <Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serving aas a mold for determine the structure of tau protein' /><scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T21:11:25Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide
<Structure load='2v17' size='300' frame='true' align='right' caption='MN423 Fab fragment serving aas a mold for determine the structure of tau protein' />
<scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T21:05:57Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide
<Structure load='2v17' size='300' frame='true' align='right' caption='Insert caption here' scene='MN423 Fab fragment serving aas a mold for determine the structure of tau protein' />
<scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T20:51:10Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide <scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref> (PDB code 2v17), as a model. Because MN423 belongs to a different antibody subclass than DC25, sequentially similar IgG1 Fab fragment has been chosen as a model for molecular replacement <ref>PMID 18703505</ref> (PDB code 3cvi). The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T20:46:33Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide <scene name='Structure_and_dynamics_of_the_microtubule-binding_hot-spots_on_the_neuronal_protein_tau/Tdhgae/1'>TDHGAE </scene> of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. Because MN423 belongs to a different antibody subclass than DC25, The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T20:37:41Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. Because MN423 belongs to a different antibody subclass than DC25, The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T20:34:53Z

Ondrej Cehlar: /* Summary */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==
Three complete datasets have been collected, for DC25 and Tau5 Fab fragments and for the complex of Tau5 fab fragment with peptide tau201-230. The structures will be solved by molecular replacement and will deepen the understanding of tau physiology.
The data obtained with surface plasmon resonance have revealed the significant difference between full length and truncated tau.

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T17:11:18Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 at 2.4 resolution]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:44:05Z

Ondrej Cehlar: /* Preliminary structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment is being solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:43:33Z

Ondrej Cehlar: /* Structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Preliminary structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:41:48Z

Ondrej Cehlar: /* Structure solution of DC25 Fab fragment */

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively.

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:40:11Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies ('''DC25''', Axon Neuroscience SE, Bratislava, Slovakia; and '''Tau5''' <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:39:26Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies (DC25, Axon Neuroscience SE, Bratislava, Slovakia; and Tau5 <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:36:05Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies (DC25 and Tau5 <ref>PMID 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:35:08Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies (DC25 and Tau5 <ref> 7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:32:13Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies (DC25 and Tau5 <ref>7479786</ref>) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:28:25Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies (DC25 and Tau5) with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:23:00Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model. The structure is being refined and rebuilt with Refmac <ref>PMID 14696379</ref> and Coot <ref>PMID 15572765</ref>, respectively

The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T15:16:38Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]

The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been also crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model.
The residues which have undergone somatic hypermutation in the process of antibody affinity maturation were identified by sequence comparison with the antibody germline and are highlighted in orange. Among them, Arg59H could mediate the contact with antigen. The tyrosine residues in heavy chain CDRs H2 and H3 can also mediate the contacts with antigen. Lys55L in the CDR L2 can be also involved in antigen binding, as it is in a complex structure involving nearly identical light chain (PDB code 2hkf3 <ref>PMID 18041760 </ref>). Proposed constraints for antigen binding will be used for molecular docking of the epitope sequence (KDRVQSK) into the obtained paratope structure of DC25 antibody.

==Summary==

==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T14:36:56Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model.

[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural insight into the epitope of monoclonal antibody DC25 ]]
==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T14:11:03Z

Ondrej Cehlar:

==Abstract==

[[Intrinsically_Disordered_Protein|Intrinsically disordered protein]] tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis <ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation <ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.

==Determination of kinetic and thermodynamic characteristics of antibody-tau interaction and their changes after tau truncation==
[[Image:SprABCDE.JPG]]

The complex formation between the full length and truncated tau proteins and Fab fragments of DC25 and Tau5 monoclonal antibodies has been monitored by the surface plasmon resonace. ('''A''') The binding curves for interaction between full length tau and DC25 Fab fragment at 25°C. ('''B''') The comparison of the association rate constants kON obtained from SPR measurements at various temperatures shows that truncated tau151-391 differs substantially in association kinetics.('''C''') The equilibrium dissociation constants obtained at various temperature points allow us to calculate the binding enthalpy and entropy from the Van’t Hoff equation <ref>PMID 16303233</ref>. The results calculated for the interaction of tau proteins with DC25 Fab fragment show that the truncated tau proteins exhibit higher negative binding enthalpy and entropy than full length tau. As the contact sites in complex are the same for all tau proteins, changes in enthalpy reflect different internal bonds in full length and truncated tau proteins. Truncated tau proteins also exhibit larger negative entropy upon the complex formation so the relative fixation of truncated tau proteins in complex is higher than that of full length tau, which has implications for the interactiontruncated tau with its cellular partners. ('''D''') The comparison of the association rate constants kON for binding of tau proteins to Tau5 Fab fragment exhibits similar dependency on truncation as in the case of DC25. ('''E''') The schema of tau varians and antibody epitopes used in this work. The binding of full length tau, tau151-391 (4 repeat) and tau297-391 <ref>PMID 7679073</ref> to the DC25 Fab fragment was investigated. For Tau5 Fab, the tau1-242 was used instead of tau297-391 as a truncated tau variant serving as a control to truncated tau151-391, which is sufficient to drive a pathology of Alzheimer's type in a rat model <ref>PMID 16753151 </ref>, <ref>PMID 21196063 </ref>.

==Structure solution of DC25 Fab fragment==
The structure of DC25 Fab fragment was solved by the molecular replacement method using the Phaser program <ref>PMID 19461840</ref>. Initially we have used the Fab fragment of monoclonal antibody MN423 , which binds to the C-terminus of truncated tau <ref>PMID 11983234</ref> and has been crystallized in complex with the terminal hexapeptide TDHGAE of truncated tau151-391 <ref>PMID 20184958 </ref>, as a model.

[[Image:FabEpitopePreview.jpg|400px|left|thumb| Structural view into the epitope of monoclonal antibody DC25 ]]
==References==
<references/>

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T13:40:48Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T13:38:59Z

Ondrej Cehlar:

File:FabEpitopePreview.jpg

2012-06-08T13:36:05Z

Ondrej Cehlar:

== Licensing ==
{{self|cc-by-sa-3.0|GFDL}}

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T13:34:37Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T13:33:57Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T13:32:48Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T12:37:55Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T12:37:09Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T10:02:54Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T10:02:03Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T09:56:25Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T09:41:20Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T09:33:19Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T09:28:57Z

Ondrej Cehlar:

File:SprABCDE.JPG

2012-06-08T09:15:45Z

Ondrej Cehlar:

== Licensing ==
{{self|cc-by-sa-3.0|GFDL}}

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T08:41:09Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T08:36:17Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T07:53:40Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T07:51:40Z

Ondrej Cehlar:

File:SPR.TIF

2012-06-08T07:35:55Z

Ondrej Cehlar:

== Licensing ==
{{self|cc-by-sa-3.0|GFDL}}

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-08T07:27:08Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-07T09:39:23Z

Ondrej Cehlar:

Structure and dynamics of the microtubule-binding hot-spots on the neuronal protein tau

2012-06-07T08:18:18Z

Ondrej Cehlar:

Intrinsically disordered protein tau plays a prominent role in the regulation of microtubular dynamics and axonal development. It binds to microtubules, supports their polymerization and organizes their assembly into evenly spaced bundles. The sites on tau molecule involved in the interaction with microtubules have been described with using of several methods (e.g. truncation analysis<ref>PMID 10984497</ref>, NMR spectrometry <ref>PMID 19226187</ref>, phage display <ref>PMID 19186939</ref>). Tau protein undergoes many posttranslational modifications as phosphorylation <ref>PMID 20663882</ref> and truncation<ref>PMID 20678071</ref>, which can play a role in the onset of neurodegeneration. Under disease conditions (e.g. Alzheimer’s disease) tau dissociates from microtubules, misfolds and creates highly insoluble paired helical filaments (PHFs).

For the presented study, two monoclonal antibodies with the epitopes in the hotspots of tau microtubule binding have been chosen. The affinity and binding enthalpy and entropy of their interaction with full length and truncated tau variants have been evaluated from the kinetic measurements obtained with the surface plasmon resonance. To elucidate the structure of tau in the hotspots of microtubule interaction, the Fab fragments of used monoclonal antibodies were crystallized alone and with 30 amino-acid long tau peptides. From two pairs of crystalized free Fab fragment and Fab complexed with tau peptide, three complete datasets were measured.
==references==
<references/>