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| | ==Structure of SopB(155-272)-18mer complex, P21 form== | | ==Structure of SopB(155-272)-18mer complex, P21 form== |
| - | <StructureSection load='3mkz' size='340' side='right' caption='[[3mkz]], [[Resolution|resolution]] 2.98Å' scene=''> | + | <StructureSection load='3mkz' size='340' side='right'caption='[[3mkz]], [[Resolution|resolution]] 2.98Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3mkz]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MKZ FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3mkz]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MKZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MKZ FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.98Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3mkw|3mkw]], [[3mky|3mky]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">B, ECOK12F047, F plasmid, sopB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=3mkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mkz OCA], [https://pdbe.org/3mkz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3mkz RCSB], [https://www.ebi.ac.uk/pdbsum/3mkz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3mkz ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3mkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mkz OCA], [http://pdbe.org/3mkz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3mkz RCSB], [http://www.ebi.ac.uk/pdbsum/3mkz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3mkz ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/SOPB_ECOLI SOPB_ECOLI]] Control of plasmid partitioning; required to recognize the cis-acting. Binds specifically with the DNA segment containing the sopC region. SopB is trans-acting. | + | [https://www.uniprot.org/uniprot/SOPB_ECOLI SOPB_ECOLI] Control of plasmid partitioning; required to recognize the cis-acting. Binds specifically with the DNA segment containing the sopC region. SopB is trans-acting. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Ecoli]] | + | [[Category: Escherichia coli K-12]] |
| - | [[Category: Schumacher, M A]]
| + | [[Category: Large Structures]] |
| - | [[Category: Centromere]]
| + | [[Category: Schumacher MA]] |
| - | [[Category: Dna-binding protein-dna complex]]
| + | |
| - | [[Category: F plasmid]] | + | |
| - | [[Category: Partition]] | + | |
| - | [[Category: Sopb]]
| + | |
| Structural highlights
Function
SOPB_ECOLI Control of plasmid partitioning; required to recognize the cis-acting. Binds specifically with the DNA segment containing the sopC region. SopB is trans-acting.
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
Accurate DNA segregation is essential for genome transmission. Segregation of the prototypical F plasmid requires the centromere-binding protein SopB, the NTPase SopA and the sopC centromere. SopB displays an intriguing range of DNA-binding properties essential for partition; it binds sopC to form a partition complex, which recruits SopA, and it also coats DNA to prevent non-specific SopA-DNA interactions, which inhibits SopA polymerization. To understand the myriad functions of SopB, we determined a series of SopB-DNA crystal structures. SopB does not distort its DNA site and our data suggest that SopB-sopC forms an extended rather than wrapped partition complex with the SopA-interacting domains aligned on one face. SopB is a multidomain protein, which like P1 ParB contains an all-helical DNA-binding domain that is flexibly attached to a compact (beta(3)-alpha)(2) dimer-domain. Unlike P1 ParB, the SopB dimer-domain does not bind DNA. Moreover, SopB contains a unique secondary dimerization motif that bridges between DNA duplexes. Both specific and non-specific SopB-DNA bridging structures were observed. This DNA-linking function suggests a novel mechanism for in trans DNA spreading by SopB, explaining how it might mask DNA to prevent DNA-mediated inhibition of SopA polymerization.
Insight into F plasmid DNA segregation revealed by structures of SopB and SopB-DNA complexes.,Schumacher MA, Piro KM, Xu W Nucleic Acids Res. 2010 Jul;38(13):4514-26. Epub 2010 Mar 17. PMID:20236989[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Schumacher MA, Piro KM, Xu W. Insight into F plasmid DNA segregation revealed by structures of SopB and SopB-DNA complexes. Nucleic Acids Res. 2010 Jul;38(13):4514-26. Epub 2010 Mar 17. PMID:20236989 doi:10.1093/nar/gkq161
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