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2z1u

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[[Image:2z1u.gif|left|200px]]
 
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{{Structure
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==Crystal Structure of Hydrogenase Maturation Protein HypE in complex with ATP==
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|PDB= 2z1u |SIZE=350|CAPTION= <scene name='initialview01'>2z1u</scene>, resolution 2.00&Aring;
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<StructureSection load='2z1u' size='340' side='right'caption='[[2z1u]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=ATP:ADENOSINE-5&#39;-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>
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<table><tr><td colspan='2'>[[2z1u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._Hildenborough Desulfovibrio vulgaris str. Hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z1U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z1U 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]] 2&#8491;</td></tr>
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|GENE= hypE ([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=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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|DOMAIN=
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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=2z1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z1u OCA], [https://pdbe.org/2z1u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z1u RCSB], [https://www.ebi.ac.uk/pdbsum/2z1u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z1u ProSAT]</span></td></tr>
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|RELATEDENTRY=[[2z1t|2Z1T]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2z1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z1u OCA], [http://www.ebi.ac.uk/pdbsum/2z1u PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2z1u RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/Q72F88_DESVH Q72F88_DESVH]
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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/z1/2z1u_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=2z1u ConSurf].
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<div style="clear:both"></div>
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'''Crystal Structure of Hydrogenase Maturation Protein HypE in complex with ATP'''
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==See Also==
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*[[HypA%2C HypB%2C HypC%2C HypD%2C HypE and HypF 3D structures|HypA%2C HypB%2C HypC%2C HypD%2C HypE and HypF 3D structures]]
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__TOC__
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==Overview==
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</StructureSection>
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The hydrogenase maturation protein HypE serves an essential function in the biosynthesis of the nitrile group, which is subsequently coordinated to Fe as CN(-) ligands in [Ni-Fe] hydrogenase. Here, we present the crystal structures of HypE from Desulfovibrio vulgaris Hildenborough in the presence and in the absence of ATP at a resolution of 2.0 A and 2.6 A, respectively. Comparison of the apo structure with the ATP-bound structure reveals that binding ATP causes an induced-fit movement of the N-terminal portion, but does not entail an overall structural change. The residue Cys341 at the C terminus, whose thiol group is supposed to be carbamoylated before the nitrile group synthesis, is completely buried within the protein and is located in the vicinity of the gamma-phosphate group of the bound ATP. This suggests that the catalytic reaction occurs in this configuration but that a conformational change is required for the carbamoylation of Cys341. A glutamate residue is found close to the thiol group as well, which is suggestive of deprotonation of the carbamoyl group at the beginning of the reactions.
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[[Category: Desulfovibrio vulgaris str. Hildenborough]]
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[[Category: Large Structures]]
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==About this Structure==
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[[Category: Higuchi Y]]
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2Z1U 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=2Z1U OCA].
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[[Category: Shomura Y]]
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==Reference==
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Crystal structures of hydrogenase maturation protein HypE in the Apo and ATP-bound forms., Shomura Y, Komori H, Miyabe N, Tomiyama M, Shibata N, Higuchi Y, J Mol Biol. 2007 Sep 28;372(4):1045-54. Epub 2007 Jul 26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17706667 17706667]
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[[Category: Desulfovibrio vulgaris]]
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[[Category: Single protein]]
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[[Category: Higuchi, Y.]]
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[[Category: Shomura, Y.]]
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[[Category: alpha-beta fold]]
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[[Category: beta barrel]]
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[[Category: lyase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:17:29 2008''
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Current revision

Crystal Structure of Hydrogenase Maturation Protein HypE in complex with ATP

PDB ID 2z1u

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