2j9b

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(New page: 200px<br /><applet load="2j9b" size="350" color="white" frame="true" align="right" spinBox="true" caption="2j9b, resolution 1.50&Aring;" /> '''THE CRYSTAL STRUCTUR...)
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[[Image:2j9b.jpg|left|200px]]<br /><applet load="2j9b" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2j9b, resolution 1.50&Aring;" />
 
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'''THE CRYSTAL STRUCTURE OF CYTOCHROME C' FROM RUBRIVIVAX GELATINOSUS AT 1.5 A RESOLUTION AND PH 6.3'''<br />
 
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==Overview==
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==THE CRYSTAL STRUCTURE OF CYTOCHROME C' FROM RUBRIVIVAX GELATINOSUS AT 1.5 A RESOLUTION AND PH 6.3==
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Cytochrome c' from the purple non-sulfur phototrophic bacterium Rubrivivax, gelatinosus has been crystallized by vapour diffusion at pH 5, 6.3 and 8, in sodium acetate, sodium citrate, and Tris-HCl buffers, respectively., Crystals grown at pH 5 and 6.3 diffract, respectively, to 2.0 A (298 K), and 1.4 A (100 K) using synchrotron radiation. Data up to 1.3 A resolution, with 99.8% completeness were collected at 100 K on a crystal grown at pH, 8. The space group is P3121 or P3221, and the unit-cell parameters are a =, b = 69.63, c = 123.63 A.
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<StructureSection load='2j9b' size='340' side='right'caption='[[2j9b]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2j9b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rubrivivax_gelatinosus Rubrivivax gelatinosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J9B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2J9B FirstGlance]. <br>
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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]] 1.5&#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=HEC:HEME+C'>HEC</scene></td></tr>
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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=2j9b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2j9b OCA], [https://pdbe.org/2j9b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2j9b RCSB], [https://www.ebi.ac.uk/pdbsum/2j9b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2j9b ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CYCP_RUBGE CYCP_RUBGE] Cytochrome c' is the most widely occurring bacterial c-type cytochrome. Cytochromes c' are high-spin proteins and the heme has no sixth ligand. Their exact function is not known.
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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/j9/2j9b_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=2j9b 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 the cytochrome c' from the purple non-sulfur phototrophic bacterium Rubrivivax gelatinosus was determined using two crystals grown independently at pH 6.3 and pH 8. The resolution attained for the two structures (1.29 A and 1.50 A for the crystals at high and low pH, respectively) is the highest to date for this class of proteins. The two structures were compared in detail in an attempt to investigate the influence of pH on the geometry of the haem and of the coordination environment of the Fe(III) ion. However, while the results suggest some small propensity for the movement of the metal atom out of the plane of the haem ring upon pH increase, the accuracy of the measurements at these two pH below the pK of the axial histidine is not sufficient to provide hard evidence of a shift in the iron position and associated changes.
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==About this Structure==
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High resolution crystal structure of Rubrivivax gelatinosus cytochrome c'.,Benini S, Rypniewski WR, Wilson KS, Ciurli S J Inorg Biochem. 2008 May-Jun;102(5-6):1322-8. Epub 2008 Jan 21. PMID:18295896<ref>PMID:18295896</ref>
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2J9B is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rubrivivax_gelatinosus Rubrivivax gelatinosus] with <scene name='pdbligand=HEM:'>HEM</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Sites: <scene name='pdbsite=AC1:Hem Binding Site For Chain A'>AC1</scene> and <scene name='pdbsite=AC2:Hem Binding Site For Chain B'>AC2</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J9B OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Crystallization and preliminary X-ray diffraction analysis of cytochrome c' from Rubrivivax gelatinosus at 1.3 A resolution., Benini S, Rypniewski WR, Wilson KS, Ciurli S, Acta Crystallogr D Biol Crystallogr. 1998 Mar 1;54(Pt 2):284-7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9761896 9761896]
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</div>
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[[Category: Rubrivivax gelatinosus]]
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<div class="pdbe-citations 2j9b" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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[[Category: Benini, S.]]
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[[Category: Ciurli, S.]]
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[[Category: Rypniewski, W.R.]]
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[[Category: Wilson, K.S.]]
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[[Category: HEM]]
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[[Category: cytochrome]]
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[[Category: electron transfer]]
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[[Category: electron transport]]
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[[Category: heme]]
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[[Category: iron]]
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[[Category: metal-binding]]
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[[Category: rubrivivax gelatinosus]]
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[[Category: transport]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:30:59 2008''
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==See Also==
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*[[Cytochrome C 3D structures|Cytochrome C 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Rubrivivax gelatinosus]]
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[[Category: Benini S]]
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[[Category: Ciurli S]]
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[[Category: Rypniewski WR]]
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[[Category: Wilson KS]]

Current revision

THE CRYSTAL STRUCTURE OF CYTOCHROME C' FROM RUBRIVIVAX GELATINOSUS AT 1.5 A RESOLUTION AND PH 6.3

PDB ID 2j9b

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