5nmo: Difference between revisions

Latest revision as of 13:08, 15 November 2023

Structure of the Bacillus subtilis Smc Joint domain

Structural highlights

5nmo is a 2 chain structure with sequence from Bacillus subtilis subsp. subtilis str. 168. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.899Å
Ligands:	EDO, MPD, PEG, SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SMC_BACSU Required for chromosome condensation and partitioning.^[1] ^[2]

Publication Abstract from PubMed

Multi-subunit SMC complexes control chromosome superstructure and promote chromosome disjunction, conceivably by actively translocating along DNA double helices. SMC subunits comprise an ABC ATPase "head" and a "hinge" dimerization domain connected by a 49 nm coiled-coil "arm." The heads undergo ATP-dependent engagement and disengagement to drive SMC action on the chromosome. Here, we elucidate the architecture of prokaryotic Smc dimers by high-throughput cysteine cross-linking and crystallography. Co-alignment of the Smc arms tightly closes the interarm space and misaligns the Smc head domains at the end of the rod by close apposition of their ABC signature motifs. Sandwiching of ATP molecules between Smc heads requires them to substantially tilt and translate relative to each other, thereby opening up the Smc arms. We show that this mechanochemical gating reaction regulates chromosome targeting and propose a mechanism for DNA translocation based on the merging of DNA loops upon closure of Smc arms.

Structure of Full-Length SMC and Rearrangements Required for Chromosome Organization.,Diebold-Durand ML, Lee H, Ruiz Avila LB, Noh H, Shin HC, Im H, Bock FP, Burmann F, Durand A, Basfeld A, Ham S, Basquin J, Oh BH, Gruber S Mol Cell. 2017 Jul 20;67(2):334-347.e5. doi: 10.1016/j.molcel.2017.06.010. Epub, 2017 Jul 6. PMID:28689660^[3]

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

References

↑ Britton RA, Lin DC, Grossman AD. Characterization of a prokaryotic SMC protein involved in chromosome partitioning. Genes Dev. 1998 May 1;12(9):1254-9. PMID:9573042
↑ Moriya S, Tsujikawa E, Hassan AK, Asai K, Kodama T, Ogasawara N. A Bacillus subtilis gene-encoding protein homologous to eukaryotic SMC motor protein is necessary for chromosome partition. Mol Microbiol. 1998 Jul;29(1):179-87. PMID:9701812
↑ Diebold-Durand ML, Lee H, Ruiz Avila LB, Noh H, Shin HC, Im H, Bock FP, Burmann F, Durand A, Basfeld A, Ham S, Basquin J, Oh BH, Gruber S. Structure of Full-Length SMC and Rearrangements Required for Chromosome Organization. Mol Cell. 2017 Jul 20;67(2):334-347.e5. doi: 10.1016/j.molcel.2017.06.010. Epub, 2017 Jul 6. PMID:28689660 doi:https://dx.doi.org/10.1016/j.molcel.2017.06.010

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OCA

[1] Britton RA, Lin DC, Grossman AD. Characterization of a prokaryotic SMC protein involved in chromosome partitioning. Genes Dev. 1998 May 1;12(9):1254-9. PMID:9573042

[2] Moriya S, Tsujikawa E, Hassan AK, Asai K, Kodama T, Ogasawara N. A Bacillus subtilis gene-encoding protein homologous to eukaryotic SMC motor protein is necessary for chromosome partition. Mol Microbiol. 1998 Jul;29(1):179-87. PMID:9701812

[3] Diebold-Durand ML, Lee H, Ruiz Avila LB, Noh H, Shin HC, Im H, Bock FP, Burmann F, Durand A, Basfeld A, Ham S, Basquin J, Oh BH, Gruber S. Structure of Full-Length SMC and Rearrangements Required for Chromosome Organization. Mol Cell. 2017 Jul 20;67(2):334-347.e5. doi: 10.1016/j.molcel.2017.06.010. Epub, 2017 Jul 6. PMID:28689660 doi:https://dx.doi.org/10.1016/j.molcel.2017.06.010

[1]

[2]

[3]

@@ Line 3: / Line 3: @@
 <StructureSection load='5nmo' size='340' side='right'caption='[[5nmo]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5nmo]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NMO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5NMO FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5nmo]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NMO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NMO FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.899&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5nmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nmo OCA], [http://pdbe.org/5nmo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nmo RCSB], [http://www.ebi.ac.uk/pdbsum/5nmo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nmo ProSAT]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5nmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nmo OCA], [https://pdbe.org/5nmo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nmo RCSB], [https://www.ebi.ac.uk/pdbsum/5nmo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nmo ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/SMC_BACSU SMC_BACSU]] Required for chromosome condensation and partitioning.<ref>PMID:9573042</ref> <ref>PMID:9701812</ref>
+[https://www.uniprot.org/uniprot/SMC_BACSU SMC_BACSU] Required for chromosome condensation and partitioning.<ref>PMID:9573042</ref> <ref>PMID:9701812</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 23: @@
 __TOC__
 </StructureSection>
+[[Category: Bacillus subtilis subsp. subtilis str. 168]]
 [[Category: Large Structures]]
-[[Category: Basquin, J]]
+[[Category: Basquin J]]
-[[Category: Diebold-Durand, M L]]
+[[Category: Diebold-Durand M-L]]
-[[Category: Gruber, S]]
+[[Category: Gruber S]]
-[[Category: Cell cycle]]
-[[Category: Smc chromosome segregation]]

5nmo: Difference between revisions

Latest revision as of 13:08, 15 November 2023

Structure of the Bacillus subtilis Smc Joint domain

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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