1gyo

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[[Image:1gyo.png|left|200px]]
 
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==Crystal structure of the di-tetraheme cytochrome c3 from Desulfovibrio gigas at 1.2 Angstrom resolution==
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The line below this paragraph, containing "STRUCTURE_1gyo", creates the "Structure Box" on the page.
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<StructureSection load='1gyo' size='340' side='right'caption='[[1gyo]], [[Resolution|resolution]] 1.20&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1gyo]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Megalodesulfovibrio_gigas Megalodesulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GYO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GYO FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.2&#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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene></td></tr>
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{{STRUCTURE_1gyo| PDB=1gyo | SCENE= }}
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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=1gyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyo OCA], [https://pdbe.org/1gyo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gyo RCSB], [https://www.ebi.ac.uk/pdbsum/1gyo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gyo ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q9R638_MEGGA Q9R638_MEGGA]
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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/gy/1gyo_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=1gyo 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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The structure of dimeric cytochrome c(3) from the sulfate-reducing bacterium Desulfovibrio gigas, diDg, obtained by ab initio methods was further refined to 1.2 A resolution, giving final reliability factors of R(free) = 14.8% and R = 12.4%. This cytochrome is a dimer of tetraheme cytochrome c(3) molecules covalently linked by two solvent-accessible disulfide bridges, a characteristic unique to members of the cytochrome c(3) superfamily. Anisotropic analysis using the semi-rigid TLS method shows different behaviour for analogous loops in each monomer arising from their different packing environments. A detailed sequence and structural comparison with all other known cytochrome c(3) domains in single- and multi-domain cytochromes c(3) shows the presence of structurally conserved regions in this family, despite the high variability of the amino-acid sequence. An internal water molecule is conserved in a common structural arrangement in all c(3) tetraheme domains, indicating a probable electron-transfer pathway between hemes I and II. Unique features of diDg are an internal methionine residue close to heme I and to one of the axial ligands of heme III, where all other structures of the cytochrome c(3) superfamily have a phenylalanine, and a rather unusual CXXXCH heme-binding motif only found so far in this cytochrome.
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===CRYSTAL STRUCTURE OF THE DI-TETRAHEME CYTOCHROME C3 FROM DESULFOVIBRIO GIGAS AT 1.2 ANG RESOLUTION===
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Structure of dimeric cytochrome c3 from Desulfovibrio gigas at 1.2 A resolution.,Aragao D, Frazao C, Sieker L, Sheldrick GM, LeGall J, Carrondo MA Acta Crystallogr D Biol Crystallogr. 2003 Apr;59(Pt 4):644-53. Epub 2003, Mar 25. PMID:12657783<ref>PMID:12657783</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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</div>
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<div class="pdbe-citations 1gyo" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_12657783}}, adds the Publication Abstract to the page
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*[[Cytochrome C 3D structures|Cytochrome C 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 12657783 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_12657783}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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[[1gyo]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_gigas Desulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GYO OCA].
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[[Category: Megalodesulfovibrio gigas]]
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[[Category: Aragao D]]
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==Reference==
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[[Category: Carrondo MA]]
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<ref group="xtra">PMID:12657783</ref><ref group="xtra">PMID:10499086</ref><ref group="xtra">PMID:3025018</ref><references group="xtra"/>
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[[Category: Frazao C]]
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[[Category: Desulfovibrio gigas]]
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[[Category: Legall J]]
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[[Category: Aragao, D.]]
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[[Category: Sheldrick GM]]
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[[Category: Carrondo, M A.]]
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[[Category: Sieker L]]
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[[Category: Frazao, C.]]
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[[Category: Legall, J.]]
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[[Category: Sheldrick, G M.]]
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[[Category: Sieker, L.]]
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[[Category: Ab initio]]
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[[Category: Cytochrome c3]]
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[[Category: Di-tetraheme]]
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[[Category: Electron transfer]]
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[[Category: Electron transport]]
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Current revision

Crystal structure of the di-tetraheme cytochrome c3 from Desulfovibrio gigas at 1.2 Angstrom resolution

PDB ID 1gyo

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OCA

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