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New page: left|200px<br /><applet load="1nvt" size="450" color="white" frame="true" align="right" spinBox="true" caption="1nvt, resolution 2.35Å" /> '''Crystal structure of...
 
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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/initialview03.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>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
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.


==About this Structure==
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:12906831<ref>PMID:12906831</ref>
1NVT 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].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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]
</div>
<div class="pdbe-citations 1nvt" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Shikimate dehydrogenase 3D structures|Shikimate dehydrogenase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Methanocaldococcus jannaschii]]
[[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''

Latest revision as of 03:45, 6 June 2025

Crystal structure of Shikimate Dehydrogenase (AROE or MJ1084) in complex with NADP+

1nvt, resolution 2.35Å

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