3c8g

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[[Image:3c8g.jpg|left|200px]]
 
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{{Structure
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==Crystal structure of a possible transciptional regulator YggD from Shigella flexneri 2a str. 2457T==
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|PDB= 3c8g |SIZE=350|CAPTION= <scene name='initialview01'>3c8g</scene>, resolution 2.50&Aring;
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<StructureSection load='3c8g' size='340' side='right'caption='[[3c8g]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
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|SITE= <scene name='pdbsite=AC1:Act+Binding+Site+For+Residue+A+201'>AC1</scene>
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MLY:N-DIMETHYL-LYSINE'>MLY</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>
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<table><tr><td colspan='2'>[[3c8g]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Shigella_flexneri_2a_str._2457T Shigella flexneri 2a str. 2457T]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C8G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C8G FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
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|GENE= yggD, S3120, SF2919 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=198215 Shigella flexneri 2a str. 2457T])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MLY:N-DIMETHYL-LYSINE'>MLY</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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|DOMAIN=
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3c8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c8g OCA], [https://pdbe.org/3c8g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c8g RCSB], [https://www.ebi.ac.uk/pdbsum/3c8g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c8g ProSAT], [https://www.topsan.org/Proteins/MCSG/3c8g TOPSAN]</span></td></tr>
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|RELATEDENTRY=
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3c8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c8g OCA], [http://www.ebi.ac.uk/pdbsum/3c8g PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3c8g RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/FUME_SHIFL FUME_SHIFL] In vitro catalyzes the addition of water to fumarate, forming malate. Cannot catalyze the reverse reaction. Cannot use the cis-isomer maleate as substrate.[UniProtKB:P11663]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c8/3c8g_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=3c8g ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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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.
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'''Crystal structure of a possible transciptional regulator YggD from Shigella flexneri 2a str. 2457T'''
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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>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==About this Structure==
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</div>
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3C8G is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Shigella_flexneri_2a_str._2457t Shigella flexneri 2a str. 2457t]. This structure supersedes the now removed PDB entry 2HKT. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C8G OCA].
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<div class="pdbe-citations 3c8g" style="background-color:#fffaf0;"></div>
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[[Category: Protein complex]]
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== References ==
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[[Category: Shigella flexneri 2a str. 2457t]]
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<references/>
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[[Category: Borovilos, M.]]
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__TOC__
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[[Category: Clancy, S.]]
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</StructureSection>
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[[Category: Joachimiak, A.]]
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[[Category: Large Structures]]
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[[Category: MCSG, Midwest Center for Structural Genomics.]]
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[[Category: Shigella flexneri 2a str. 2457T]]
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[[Category: Tan, K.]]
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[[Category: Borovilos M]]
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[[Category: apc27974]]
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[[Category: Clancy S]]
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[[Category: mannitol operon repressor]]
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[[Category: Joachimiak A]]
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[[Category: mcsg]]
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[[Category: Tan K]]
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[[Category: methylation]]
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[[Category: midwest center for structural genomic]]
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[[Category: protein structure initiative]]
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[[Category: psi-2]]
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[[Category: shigella flexneri 2a str. 2457t]]
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[[Category: structural genomic]]
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[[Category: transcription regulator]]
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[[Category: yggd]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:31:03 2008''
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Current revision

Crystal structure of a possible transciptional regulator YggD from Shigella flexneri 2a str. 2457T

PDB ID 3c8g

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