2kmt: Difference between revisions

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{{Seed}}
[[Image:2kmt.jpg|left|200px]]


<!--
==NMR solution structure of Vibrio fischeri CcdB==
The line below this paragraph, containing "STRUCTURE_2kmt", creates the "Structure Box" on the page.
<StructureSection load='2kmt' size='340' side='right'caption='[[2kmt]]' 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'>[[2kmt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Aliivibrio_fischeri Aliivibrio fischeri]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KMT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KMT 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">Solution NMR</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=2kmt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kmt OCA], [https://pdbe.org/2kmt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kmt RCSB], [https://www.ebi.ac.uk/pdbsum/2kmt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kmt ProSAT]</span></td></tr>
{{STRUCTURE_2kmt|  PDB=2kmt  |  SCENE=  }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q84B82_ALIFS Q84B82_ALIFS]
== 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/km/2kmt_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=2kmt ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
CcdB(Vfi) from Vibrio fischeri is a member of the CcdB family of toxins that poison covalent gyrase-DNA complexes. In solution CcdB(Vfi) is a dimer that unfolds to the corresponding monomeric components in a two-state fashion. In the unfolded state, the monomer retains a partial secondary structure. This observation correlates well with the crystal and NMR structures of the protein, which show a dimer with a hydrophobic core crossing the dimer interface. In contrast to its F plasmid homologue, CcdB(Vfi) possesses a rigid dimer interface, and the apparent relative rotations of the two subunits are due to structural plasticity of the monomer. CcdB(Vfi) shows a number of non-conservative substitutions compared with the F plasmid protein in both the CcdA and the gyrase binding sites. Although variation in the CcdA interaction site likely determines toxin-antitoxin specificity, substitutions in the gyrase-interacting region may have more profound functional implications.


===NMR solution structure of Vibrio fischeri CcdB===
Structural and thermodynamic characterization of Vibrio fischeri CcdB.,De Jonge N, Hohlweg W, Garcia-Pino A, Respondek M, Buts L, Haesaerts S, Lah J, Zangger K, Loris R J Biol Chem. 2010 Feb 19;285(8):5606-13. Epub 2009 Dec 2. PMID:19959472<ref>PMID:19959472</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
2KMT is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Vibrio_fischeri Vibrio fischeri]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KMT OCA].
<div class="pdbe-citations 2kmt" style="background-color:#fffaf0;"></div>
[[Category: Vibrio fischeri]]
== References ==
[[Category: Zangger, K.]]
<references/>
[[Category: Toxin]]
__TOC__
 
</StructureSection>
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec  2 10:13:46 2009''
[[Category: Aliivibrio fischeri]]
[[Category: Large Structures]]
[[Category: Zangger K]]

Latest revision as of 05:36, 15 May 2024

NMR solution structure of Vibrio fischeri CcdB

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