2dfk: Difference between revisions

Latest revision as of 07:55, 30 October 2024

Crystal structure of the CDC42-Collybistin II complex

Structural highlights

2dfk is a 4 chain structure with sequence from Homo sapiens and Rattus norvegicus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.15Å
Ligands:	GOL, SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ARHG9_RAT Acts as guanine nucleotide exchange factor (GEF) for CDC42. Promotes formation of GPHN clusters.^[1] ^[2] ^[3]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The synaptic localization of ion channel receptors is essential for efficient synaptic transmission and the precise regulation of diverse neuronal functions. In the central nervous system, ion channel receptors reside in the postsynaptic membrane where they are juxtaposed to presynaptic terminals. For proper function, these ion channels have to be anchored to the cytoskeleton, and in the case of the inhibitory glycine and gamma-amino-butyric acid type A (GABA(A)) receptors this interaction is mediated by a gephyrin centered scaffold. Highlighting its central role in this receptor anchoring scaffold, gephyrin interacts with a number of proteins, including the neurospecific guanine nucleotide exchange factor collybistin. Collybistin belongs to the Dbl family of guanine nucleotide exchange factors, occurs in multiple splice variants, and is specific for Cdc42, a small GTPase belonging to the Rho family. The 2.3 Angstroms resolution crystal structure of the Cdc42-collybistin II complex reveals a novel conformation of the switch I region of Cdc42. It also provides the first direct observation of structural changes in the relative orientation of the Dbl-homology domain and the pleckstrin-homology domain in the same Dbl family protein. Biochemical data indicate that gephyrin negatively regulates collybistin activity.

The crystal structure of Cdc42 in complex with collybistin II, a gephyrin-interacting guanine nucleotide exchange factor.,Xiang S, Kim EY, Connelly JJ, Nassar N, Kirsch J, Winking J, Schwarz G, Schindelin H J Mol Biol. 2006 May 26;359(1):35-46. Epub 2006 Mar 29. PMID:16616186^[4]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Kins S, Betz H, Kirsch J. Collybistin, a newly identified brain-specific GEF, induces submembrane clustering of gephyrin. Nat Neurosci. 2000 Jan;3(1):22-9. PMID:10607391 doi:https://dx.doi.org/10.1038/71096
↑ Grosskreutz Y, Hermann A, Kins S, Fuhrmann JC, Betz H, Kneussel M. Identification of a gephyrin-binding motif in the GDP/GTP exchange factor collybistin. Biol Chem. 2001 Oct;382(10):1455-62. PMID:11727829 doi:https://dx.doi.org/10.1515/BC.2001.179
↑ Harvey K, Duguid IC, Alldred MJ, Beatty SE, Ward H, Keep NH, Lingenfelter SE, Pearce BR, Lundgren J, Owen MJ, Smart TG, Luscher B, Rees MI, Harvey RJ. The GDP-GTP exchange factor collybistin: an essential determinant of neuronal gephyrin clustering. J Neurosci. 2004 Jun 23;24(25):5816-26. PMID:15215304 doi:10.1523/JNEUROSCI.1184-04.2004
↑ Xiang S, Kim EY, Connelly JJ, Nassar N, Kirsch J, Winking J, Schwarz G, Schindelin H. The crystal structure of Cdc42 in complex with collybistin II, a gephyrin-interacting guanine nucleotide exchange factor. J Mol Biol. 2006 May 26;359(1):35-46. Epub 2006 Mar 29. PMID:16616186 doi:10.1016/j.jmb.2006.03.019

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Kins S, Betz H, Kirsch J. Collybistin, a newly identified brain-specific GEF, induces submembrane clustering of gephyrin. Nat Neurosci. 2000 Jan;3(1):22-9. PMID:10607391 doi:https://dx.doi.org/10.1038/71096

[2] Grosskreutz Y, Hermann A, Kins S, Fuhrmann JC, Betz H, Kneussel M. Identification of a gephyrin-binding motif in the GDP/GTP exchange factor collybistin. Biol Chem. 2001 Oct;382(10):1455-62. PMID:11727829 doi:https://dx.doi.org/10.1515/BC.2001.179

[3] Harvey K, Duguid IC, Alldred MJ, Beatty SE, Ward H, Keep NH, Lingenfelter SE, Pearce BR, Lundgren J, Owen MJ, Smart TG, Luscher B, Rees MI, Harvey RJ. The GDP-GTP exchange factor collybistin: an essential determinant of neuronal gephyrin clustering. J Neurosci. 2004 Jun 23;24(25):5816-26. PMID:15215304 doi:10.1523/JNEUROSCI.1184-04.2004

[4] Xiang S, Kim EY, Connelly JJ, Nassar N, Kirsch J, Winking J, Schwarz G, Schindelin H. The crystal structure of Cdc42 in complex with collybistin II, a gephyrin-interacting guanine nucleotide exchange factor. J Mol Biol. 2006 May 26;359(1):35-46. Epub 2006 Mar 29. PMID:16616186 doi:10.1016/j.jmb.2006.03.019

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[4]

@@ Line 3: / Line 3: @@
 <StructureSection load='2dfk' size='340' side='right'caption='[[2dfk]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2dfk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat] and [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFK FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2dfk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFK FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.15&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1foe|1foe]], [[1kz7|1kz7]], [[1kzg|1kzg]], [[1lb1|1lb1]], [[1ki1|1ki1]], [[1dbh|1dbh]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfk OCA], [https://pdbe.org/2dfk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dfk RCSB], [https://www.ebi.ac.uk/pdbsum/2dfk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfk ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/ARHG9_RAT ARHG9_RAT]] Acts as guanine nucleotide exchange factor (GEF) for CDC42. Promotes formation of GPHN clusters.<ref>PMID:10607391</ref> <ref>PMID:11727829</ref> <ref>PMID:15215304</ref>  [[https://www.uniprot.org/uniprot/CDC42_HUMAN CDC42_HUMAN]] Plasma membrane-associated small GTPase which cycles between an active GTP-bound and an inactive GDP-bound state. In active state binds to a variety of effector proteins to regulate cellular responses. Involved in epithelial cell polarization processes. Regulates the bipolar attachment of spindle microtubules to kinetochores before chromosome congression in metaphase. Plays a role in the extension and maintenance of the formation of thin, actin-rich surface projections called filopodia. Mediates CDC42-dependent cell migration.<ref>PMID:14978216</ref> <ref>PMID:15642749</ref> <ref>PMID:17038317</ref>
+[https://www.uniprot.org/uniprot/ARHG9_RAT ARHG9_RAT] Acts as guanine nucleotide exchange factor (GEF) for CDC42. Promotes formation of GPHN clusters.<ref>PMID:10607391</ref> <ref>PMID:11727829</ref> <ref>PMID:15215304</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 15: / Line 15: @@
    <jmolCheckbox>
      <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/df/2dfk_consurf.spt"</scriptWhenChecked>
-     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
      <text>to colour the structure by Evolutionary Conservation</text>
    </jmolCheckbox>
@@ Line 37: / Line 37: @@
 __TOC__
 </StructureSection>
-[[Category: Buffalo rat]]
+[[Category: Homo sapiens]]
-[[Category: Human]]
 [[Category: Large Structures]]
-[[Category: Connelly, J J]]
+[[Category: Rattus norvegicus]]
-[[Category: Kim, E Y]]
+[[Category: Connelly JJ]]
-[[Category: Kirsch, J]]
+[[Category: Kim EY]]
-[[Category: Nassar, N]]
+[[Category: Kirsch J]]
-[[Category: Schindelin, H]]
+[[Category: Nassar N]]
-[[Category: Schwarz, G]]
+[[Category: Schindelin H]]
-[[Category: Winking, J]]
+[[Category: Schwarz G]]
-[[Category: Xiang, S]]
+[[Category: Winking J]]
-[[Category: Cell cycle]]
+[[Category: Xiang S]]
-[[Category: Dh domain]]
-[[Category: Ph domain]]

2dfk: Difference between revisions

Latest revision as of 07:55, 30 October 2024

Crystal structure of the CDC42-Collybistin II complex

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

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