1nvt: Difference between revisions

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OCA

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-[[Image:1nvt.gif|left|200px]]<br /><applet load="1nvt" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1nvt, resolution 2.35&Aring;" />
-'''Crystal structure of Shikimate Dehydrogenase (AROE or MJ1084) in complex with NADP+'''<br />
-==Overview==
+==Crystal structure of Shikimate Dehydrogenase (AROE or MJ1084) in complex with NADP+==
-The crystal structure of Methanococcus jannaschii shikimate, 5-dehydrogenase (MjSDH) bound to the cofactor nicotinamide adenine, dinucleotide phosphate (NADP) has been determined at 2.35 A resolution., Shikimate 5-dehydrogenase (SDH) is responsible for NADP-dependent, catalysis of the fourth step in shikimate biosynthesis, which is essential, for aromatic amino acid metabolism in bacteria, microbial eukaryotes, and, plants. The structure of MjSDH is a compact alpha/beta sandwich with two, distinct domains, responsible for binding substrate and the NADP cofactor, respectively. A phylogenetically conserved deep cleft on the protein, surface corresponds to the enzyme active site. The structure reveals a, topologically new domain fold within the N-terminal segment of the, polypeptide chain, which binds substrate and supports dimerization., Insights gained from homology modeling and sequence/structure comparisons, suggest that the SDHs represent a unique class of dehydrogenases. The, structure provides a framework for further investigation to discover and, develop novel inhibitors targeting this essential enzyme.
+<StructureSection load='1nvt' size='340' side='right'caption='[[1nvt]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1nvt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NVT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NVT FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1nvt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nvt OCA], [https://pdbe.org/1nvt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nvt RCSB], [https://www.ebi.ac.uk/pdbsum/1nvt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nvt ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1nvt TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/AROE_METJA AROE_METJA]
+== 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/nv/1nvt_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=1nvt ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-NVT is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii] with ZN and NAP as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NVT OCA].
+*[[Shikimate dehydrogenase 3D structures|Shikimate dehydrogenase 3D structures]]
+__TOC__
-==Reference==
+</StructureSection>
-Crystal structure of shikimate 5-dehydrogenase (SDH) bound to NADP: insights into function and evolution., Padyana AK, Burley SK, Structure. 2003 Aug;11(8):1005-13. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12906831 12906831]
+[[Category: Large Structures]]
 [[Category: Methanocaldococcus jannaschii]]
-[[Category: Shikimate dehydrogenase]]
+[[Category: Burley SK]]
-[[Category: Single protein]]
+[[Category: Padyana AK]]
-[[Category: Burley, S.K.]]
-[[Category: NYSGXRC, New.York.Structural.GenomiX.Research.Consortium.]]
-[[Category: Padyana, A.K.]]
-[[Category: NAP]]
-[[Category: ZN]]
-[[Category: new york structural genomix research consortium]]
-[[Category: nysgxrc]]
-[[Category: protein structure initiative]]
-[[Category: psi]]
-[[Category: structural genomics]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:35:46 2007''