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2avk

From Proteopedia

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[[Image:2avk.gif|left|200px]]
 
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{{Structure
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==met-azido-DcrH-Hr==
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|PDB= 2avk |SIZE=350|CAPTION= <scene name='initialview01'>2avk</scene>, resolution 1.530&Aring;
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<StructureSection load='2avk' size='340' side='right'caption='[[2avk]], [[Resolution|resolution]] 1.53&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene> and <scene name='pdbligand=FEA:MONOAZIDO-MU-OXO-DIIRON'>FEA</scene>
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<table><tr><td colspan='2'>[[2avk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AVK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AVK 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]] 1.53&#8491;</td></tr>
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|GENE= locus AF210632 accession AF210632.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=881 Desulfovibrio vulgaris])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FEA:MONOAZIDO-MU-OXO-DIIRON'>FEA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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}}
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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=2avk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2avk OCA], [https://pdbe.org/2avk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2avk RCSB], [https://www.ebi.ac.uk/pdbsum/2avk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2avk ProSAT]</span></td></tr>
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</table>
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'''met-azido-DcrH-Hr'''
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== Function ==
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[https://www.uniprot.org/uniprot/Q9REU3_DESVU Q9REU3_DESVU]
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== Evolutionary Conservation ==
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==Overview==
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[[Image:Consurf_key_small.gif|200px|right]]
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The methyl-accepting chemotaxis protein, DcrH, from the anaerobic sulfate-reducing bacterium, Desulfovibrio vulgaris (Hildenborough), has a hemerythrin-like domain, DcrH-Hr, at its C terminus. DcrH-Hr was previously shown to contain a diiron site that binds O2, suggesting an O2-sensing function. X-ray crystal structures of diferric (met-), azido-diferric (azidomet-), and diferrous (deoxy-) DcrH-Hr reveal a "substrate tunnel" distinct from that in invertebrate hemerythrins. This tunnel is proposed to facilitate the rapid autoxidation of oxy-DcrH-Hr and suggests that sensing is triggered by O2 binding and subsequent oxidation of the diferrous active site. The N-terminal loop of DcrH-Hr is highly ordered in both met- and azidomet-DcrH-Hr but is disordered in deoxy-DcrH-Hr. These redox-dependent conformational differences presumably transduce the sensory signal of DcrH-Hr to the neighboring methylation domain in the full-length receptor. Given the putative cytoplasmic localization of its Hr-like O2-sensing domain, DcrH is proposed to serve a role in negative aerotaxis (anaerotaxis).
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Check<jmol>
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<jmolCheckbox>
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==About this Structure==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/av/2avk_consurf.spt"</scriptWhenChecked>
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2AVK is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AVK OCA].
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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==Reference==
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</jmolCheckbox>
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Structural basis for O2 sensing by the hemerythrin-like domain of a bacterial chemotaxis protein: substrate tunnel and fluxional N terminus., Isaza CE, Silaghi-Dumitrescu R, Iyer RB, Kurtz DM Jr, Chan MK, Biochemistry. 2006 Aug 1;45(30):9023-31. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16866347 16866347]
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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=2avk ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Desulfovibrio vulgaris]]
[[Category: Desulfovibrio vulgaris]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Chan, M K.]]
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[[Category: Chan MK]]
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[[Category: Isaza, C E.]]
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[[Category: Isaza CE]]
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[[Category: Iyer, R B.]]
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[[Category: Iyer RB]]
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[[Category: Kurtz, D M.]]
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[[Category: Kurtz DM]]
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[[Category: Silaghi-Dumitrescu, R.]]
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[[Category: Silaghi-Dumitrescu R]]
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[[Category: FEA]]
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[[Category: SO4]]
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[[Category: hemerythrin-like oxygen sensor]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:54:20 2008''
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Current revision

met-azido-DcrH-Hr

PDB ID 2avk

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