2vkr

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(New page: 200px<br /><applet load="2vkr" size="350" color="white" frame="true" align="right" spinBox="true" caption="2vkr, resolution 2.01&Aring;" /> '''3FE-4S, 4FE-4S PLUS ...)
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[[Image:2vkr.jpg|left|200px]]<br /><applet load="2vkr" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2vkr, resolution 2.01&Aring;" />
 
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'''3FE-4S, 4FE-4S PLUS ZN ACIDIANUS AMBIVALENS FERREDOXIN'''<br />
 
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==Overview==
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==3Fe-4S, 4Fe-4S plus Zn Acidianus ambivalens ferredoxin==
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Detailed structural models of di-cluster seven-iron ferredoxins constitute a valuable resource for folding and stability studies relating the metal cofactors' role in protein stability. The here reported, hemihedric twinned crystal structure at 2.0A resolution from Acidianus ambivalens ferredoxin, shows an integral 103 residues, physiologically relevant native form composed by a N-terminal extension comprising a His/Asp Zn(2+) site and the ferredoxin (betaalphabeta)(2) core, which harbours intact clusters I and II, a [3Fe-4S](1+/0) and a [4Fe-4S](2+/1+) centres. This is in contrast with the previously available ferredoxin structure from Sulfolofus tokodai, which was obtained from an artificial oxidative conversion with two [3Fe-4S](1+/0) centres and poor definition around cluster II.
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<StructureSection load='2vkr' size='340' side='right'caption='[[2vkr]], [[Resolution|resolution]] 2.01&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2vkr]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Acidianus_ambivalens Acidianus ambivalens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VKR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VKR 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]] 2.01&#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=F3S:FE3-S4+CLUSTER'>F3S</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=2vkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vkr OCA], [https://pdbe.org/2vkr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vkr RCSB], [https://www.ebi.ac.uk/pdbsum/2vkr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vkr ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/FER_ACIAM FER_ACIAM] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions. The 3Fe-4S cluster is reduced by a flavoprotein with NADH oxidase activity from the same organism.
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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/vk/2vkr_consurf.spt"</scriptWhenChecked>
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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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</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=2vkr ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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2VKR is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Acidianus_ambivalens Acidianus ambivalens] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=F3S:'>F3S</scene> and <scene name='pdbligand=SF4:'>SF4</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Sites: <scene name='pdbsite=AC1:F3s+Binding+Site+For+Chain+A'>AC1</scene>, <scene name='pdbsite=AC2:Sf4+Binding+Site+For+Chain+A'>AC2</scene>, <scene name='pdbsite=AC3:Zn+Binding+Site+For+Chain+A'>AC3</scene>, <scene name='pdbsite=AC4:F3s+Binding+Site+For+Chain+B'>AC4</scene>, <scene name='pdbsite=AC5:Sf4+Binding+Site+For+Chain+B'>AC5</scene>, <scene name='pdbsite=AC6:Zn+Binding+Site+For+Chain+B'>AC6</scene>, <scene name='pdbsite=AC7:F3s+Binding+Site+For+Chain+C'>AC7</scene>, <scene name='pdbsite=AC8:Sf4+Binding+Site+For+Chain+C'>AC8</scene>, <scene name='pdbsite=AC9:Zn+Binding+Site+For+Chain+C'>AC9</scene>, <scene name='pdbsite=BC1:F3s+Binding+Site+For+Chain+D'>BC1</scene>, <scene name='pdbsite=BC2:Sf4+Binding+Site+For+Chain+D'>BC2</scene>, <scene name='pdbsite=BC3:Zn+Binding+Site+For+Chain+D'>BC3</scene>, <scene name='pdbsite=BC4:F3s+Binding+Site+For+Chain+E'>BC4</scene>, <scene name='pdbsite=BC5:Sf4+Binding+Site+For+Chain+E'>BC5</scene>, <scene name='pdbsite=BC6:Zn+Binding+Site+For+Chain+E'>BC6</scene>, <scene name='pdbsite=BC7:F3s+Binding+Site+For+Chain+F'>BC7</scene>, <scene name='pdbsite=BC8:Sf4+Binding+Site+For+Chain+F'>BC8</scene>, <scene name='pdbsite=BC9:Zn+Binding+Site+For+Chain+F'>BC9</scene>, <scene name='pdbsite=CC1:F3s+Binding+Site+For+Chain+G'>CC1</scene>, <scene name='pdbsite=CC2:Sf4+Binding+Site+For+Chain+G'>CC2</scene> and <scene name='pdbsite=CC3:Zn+Binding+Site+For+Chain+G'>CC3</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VKR OCA].
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*[[Ferredoxin 3D structures|Ferredoxin 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystallographic analysis of the intact metal centres [3Fe-4S](1+/0) and [4Fe-4S](2+/1+) in a Zn(2+)-containing ferredoxin., Frazao C, Aragao D, Coelho R, Leal SS, Gomes CM, Teixeira M, Carrondo MA, FEBS Lett. 2008 Mar 5;582(5):763-7. Epub 2008 Feb 5. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18258200 18258200]
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[[Category: Acidianus ambivalens]]
[[Category: Acidianus ambivalens]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Aragao, D.]]
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[[Category: Aragao D]]
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[[Category: Carrondo, M A.]]
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[[Category: Carrondo MA]]
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[[Category: Coelho, R.]]
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[[Category: Coelho R]]
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[[Category: Frazao, C.]]
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[[Category: Frazao C]]
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[[Category: Gomes, C M.]]
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[[Category: Gomes CM]]
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[[Category: Leal, S S.]]
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[[Category: Leal SS]]
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[[Category: Teixeira, M.]]
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[[Category: Teixeira M]]
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[[Category: F3S]]
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[[Category: SF4]]
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[[Category: ZN]]
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[[Category: 3fe-4]]
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[[Category: 4fe-4]]
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[[Category: electron transport]]
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[[Category: ferredoxin]]
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[[Category: hemihedric twinnig]]
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[[Category: iron]]
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[[Category: iron-sulfur]]
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[[Category: iron-sulfur protein]]
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[[Category: metal-binding]]
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[[Category: methylation]]
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[[Category: protein folding]]
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[[Category: thermophile]]
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[[Category: thermostable protein]]
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[[Category: transport]]
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[[Category: zinc]]
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[[Category: zn center]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 5 13:23:02 2008''
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Current revision

3Fe-4S, 4Fe-4S plus Zn Acidianus ambivalens ferredoxin

PDB ID 2vkr

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