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2vkr

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

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Retrieved from "http://52.214.119.220/wiki/index.php/2vkr"

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-[[Image:2vkr.jpg|left|200px]]
- {{Structure
+==3Fe-4S, 4Fe-4S plus Zn Acidianus ambivalens ferredoxin==
-|PDB= 2vkr |SIZE=350|CAPTION= <scene name='initialview01'>2vkr</scene>, resolution 2.01&Aring;
+<StructureSection load='2vkr' size='340' side='right'caption='[[2vkr]], [[Resolution|resolution]] 2.01&Aring;' scene=''>
-|SITE= <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>
+== Structural highlights ==
-|LIGAND= <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>
+<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>
-|ACTIVITY=
+</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>
-|GENE=
+<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>
-|DOMAIN=
+<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>
-|RELATEDENTRY=
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2vkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vkr OCA], [http://www.ebi.ac.uk/pdbsum/2vkr PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2vkr RCSB]</span>
+== Function ==
-}}
+[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.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vk/2vkr_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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].
+<div style="clear:both"></div>
-'''3FE-4S, 4FE-4S PLUS ZN ACIDIANUS AMBIVALENS FERREDOXIN'''
+==See Also==
+*[[Ferredoxin 3D structures|Ferredoxin 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-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.
-==About this Structure==
-VKR is a [[Single protein]] structure of sequence from [http://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].
-==Reference==
-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://www.ncbi.nlm.nih.gov/pubmed/18258200 18258200]
 [[Category: Acidianus ambivalens]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Aragao, D.]]
+[[Category: Aragao D]]
-[[Category: Carrondo, M A.]]
+[[Category: Carrondo MA]]
-[[Category: Coelho, R.]]
+[[Category: Coelho R]]
-[[Category: Frazao, C.]]
+[[Category: Frazao C]]
-[[Category: Gomes, C M.]]
+[[Category: Gomes CM]]
-[[Category: Leal, S S.]]
+[[Category: Leal SS]]
-[[Category: Teixeira, M.]]
+[[Category: Teixeira M]]
-[[Category: 3fe-4]]
-[[Category: 4fe-4]]
-[[Category: electron transport]]
-[[Category: ferredoxin]]
-[[Category: hemihedric twinnig]]
-[[Category: iron]]
-[[Category: iron-sulfur]]
-[[Category: iron-sulfur protein]]
-[[Category: metal-binding]]
-[[Category: methylation]]
-[[Category: protein folding]]
-[[Category: thermophile]]
-[[Category: thermostable protein]]
-[[Category: transport]]
-[[Category: zinc]]
-[[Category: zn center]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:13:19 2008''

2vkr

From Proteopedia

Current revision

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

Structural highlights

Function

Evolutionary Conservation

See Also

Contents

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