3mkz: Difference between revisions

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{{Seed}}
[[Image:3mkz.png|left|200px]]


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==Structure of SopB(155-272)-18mer complex, P21 form==
The line below this paragraph, containing "STRUCTURE_3mkz", creates the "Structure Box" on the page.
<StructureSection load='3mkz' size='340' side='right'caption='[[3mkz]], [[Resolution|resolution]] 2.98&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<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>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.98&#8491;</td></tr>
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<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>
{{STRUCTURE_3mkz|  PDB=3mkz  |  SCENE=  }}
<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>
</table>
== Function ==
[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 ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mk/3mkz_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3mkz ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== 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.


===Structure of SopB(155-272)-18mer complex, P21 form===
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<ref>PMID:20236989</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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The line below this paragraph, {{ABSTRACT_PUBMED_20236989}}, adds the Publication Abstract to the page
<div class="pdbe-citations 3mkz" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 20236989 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_20236989}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Escherichia coli K-12]]
3MKZ is a 8 chains structure with sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MKZ OCA].
[[Category: Large Structures]]
 
[[Category: Schumacher MA]]
==Reference==
<ref group="xtra">PMID:20236989</ref><references group="xtra"/>
[[Category: Escherichia coli]]
[[Category: Schumacher, M A.]]
[[Category: Centromere]]
[[Category: Dna-binding protein-dna complex]]
[[Category: F plasmid]]
[[Category: Partition]]
[[Category: Sopb]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Aug 12 00:11:37 2010''

Latest revision as of 08:55, 6 September 2023

Structure of SopB(155-272)-18mer complex, P21 form

3mkz, resolution 2.98Å

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