3brj: Difference between revisions

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


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==Crystal structure of mannitol operon repressor (MtlR) from Vibrio parahaemolyticus RIMD 2210633==
The line below this paragraph, containing "STRUCTURE_3brj", creates the "Structure Box" on the page.
<StructureSection load='3brj' size='340' side='right'caption='[[3brj]], [[Resolution|resolution]] 2.75&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'>[[3brj]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_parahaemolyticus_RIMD_2210633 Vibrio parahaemolyticus RIMD 2210633]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BRJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BRJ 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]] 2.75&#8491;</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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
{{STRUCTURE_3brj|  PDB=3brj  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3brj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3brj OCA], [https://pdbe.org/3brj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3brj RCSB], [https://www.ebi.ac.uk/pdbsum/3brj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3brj ProSAT], [https://www.topsan.org/Proteins/MCSG/3brj TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q87SQ4_VIBPA Q87SQ4_VIBPA]
== 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/br/3brj_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3brj ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Many bacteria express phosphoenolpyruvate-dependent phosphotransferase systems (PTS). The mannitol-specific PTS catalyze the uptake and phosphorylation of d-mannitol. The uptake system comprises several genes encoded in the single operon. The expression of the mannitol operon is regulated by a proposed transcriptional factor, mannitol operon repressor (MtlR) that was first studied in Escherichia coli. Here we report the first crystal structures of MtlR from Vibrio parahemeolyticus (Vp-MtlR) and its homolog YggD protein from Shigella flexneri (Sf-YggD). MtlR and YggD belong to the same protein family (Pfam05068). Although Vp-MtlR and Sf-YggD share low sequence identity (22%), their overall structures are very similar, representing a novel all alpha-helical fold, and indicate similar function. However, their lack of any known DNA-binding structural motifs and their unfavorable electrostatic properties imply that MtlR/YggD are unlikely to bind a specific DNA operator directly as proposed earlier. This structural observation is further corroborated by in vitro DNA-binding studies of E. coli MtlR (Ec-MtlR), which detected no interaction of Ec-MtlR with the well characterized mannitol operator/promoter region. Therefore, MtlR/YggD belongs to a new class of transcription factors in bacteria that may regulate gene expression indirectly as a part of a larger transcriptional complex.


===Crystal structure of mannitol operon repressor (MtlR) from Vibrio parahaemolyticus RIMD 2210633===
The mannitol operon repressor MtlR belongs to a new class of transcription regulators in bacteria.,Tan K, Clancy S, Borovilos M, Zhou M, Horer S, Moy S, Volkart LL, Sassoon J, Baumann U, Joachimiak A J Biol Chem. 2009 Dec 25;284(52):36670-9. Epub 2009 Oct 19. PMID:19840941<ref>PMID:19840941</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
3BRJ is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Vibrio_parahaemolyticus_rimd_2210633 Vibrio parahaemolyticus rimd 2210633]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BRJ OCA].
<div class="pdbe-citations 3brj" style="background-color:#fffaf0;"></div>
[[Category: Vibrio parahaemolyticus rimd 2210633]]
== References ==
[[Category: Joachimiak, A.]]
<references/>
[[Category: MCSG, Midwest Center for Structural Genomics.]]
__TOC__
[[Category: Moy, S.]]
</StructureSection>
[[Category: Tan, K.]]
[[Category: Large Structures]]
[[Category: Zhou, M.]]
[[Category: Vibrio parahaemolyticus RIMD 2210633]]
[[Category: Apc85967 1]]
[[Category: Joachimiak A]]
[[Category: Mannitol operon repressor]]
[[Category: Moy S]]
[[Category: Mcsg]]
[[Category: Tan K]]
[[Category: Midwest center for structural genomic]]
[[Category: Zhou M]]
[[Category: Mtlr]]
[[Category: Protein structure initiative]]
[[Category: Psi-2]]
[[Category: Structural genomic]]
[[Category: Transcription]]
[[Category: Vibrio parahaemolyticus rimd 2210633]]
 
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Retrieved from "https://proteopedia.org/3brj"