2z1t: Difference between revisions

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[[Image:2z1t.gif|left|200px]]


{{Structure
==Crystal Structure of Hydrogenase Maturation Protein HypE==
|PDB= 2z1t |SIZE=350|CAPTION= <scene name='initialview01'>2z1t</scene>, resolution 2.60&Aring;
<StructureSection load='2z1t' size='340' side='right'caption='[[2z1t]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND=  
<table><tr><td colspan='2'>[[2z1t]] 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=2Z1T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z1T 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]] 2.6&#8491;</td></tr>
|GENE= hypE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=881 Desulfovibrio vulgaris])
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2z1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z1t OCA], [https://pdbe.org/2z1t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z1t RCSB], [https://www.ebi.ac.uk/pdbsum/2z1t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z1t ProSAT]</span></td></tr>
}}
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q72F88_DESVH Q72F88_DESVH]
== 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/z1/2z1t_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=2z1t ConSurf].
<div style="clear:both"></div>


'''Crystal Structure of Hydrogenase Maturation Protein HypE'''
==See Also==
 
*[[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]]
 
__TOC__
==Overview==
</StructureSection>
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.
[[Category: Desulfovibrio vulgaris str. Hildenborough]]
 
[[Category: Large Structures]]
==About this Structure==
[[Category: Higuchi Y]]
2Z1T 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=2Z1T OCA].
[[Category: Shomura Y]]
 
==Reference==
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]
[[Category: Desulfovibrio vulgaris]]
[[Category: Single protein]]
[[Category: Higuchi, Y.]]
[[Category: Shomura, Y.]]
[[Category: alpha-beta fold]]
[[Category: beta barrel]]
[[Category: lyase]]
 
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Retrieved from "https://proteopedia.org/2z1t"