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1dss

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[[Image:1dss.gif|left|200px]]<br />
 
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<applet load="1dss" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1dss, resolution 1.88&Aring;" />
 
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'''STRUCTURE OF ACTIVE-SITE CARBOXYMETHYLATED D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM PALINURUS VERSICOLOR'''<br />
 
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==Overview==
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==STRUCTURE OF ACTIVE-SITE CARBOXYMETHYLATED D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM PALINURUS VERSICOLOR==
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The structure of active site carboxymethylated, D-glyceraldehyde-3-phosphate dehydrogenase from Palinurus versicolor was, determined in the presence of coenzyme NAD+ at 1.88 A resolution with a, final R-factor of 0.175. The structure refinement was carried out on the, basis of the structure of holo-GAPDH at 2.0 A resolution using the program, XPLOR. The carboxymethyl group connected to Cys149 is stabilized by a, hydrogen bond between its OZ1 and Cys149N, and charge interaction between, the carboxyl group and the nicotinamide moiety. The modification of Cys149, induced conformational changes in the active site, in particular, the site, of sulphate ion 501 (the proposed attacking inorganic phosphate ion in, catalysis), and segment 208-218 nearby. Extensive hydrogen-bonding, interactions ... [[http://ispc.weizmann.ac.il/pmbin/getpm?10191140 (full description)]]
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<StructureSection load='1dss' size='340' side='right'caption='[[1dss]], [[Resolution|resolution]] 1.88&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1dss]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Panulirus_versicolor Panulirus versicolor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DSS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DSS FirstGlance]. <br>
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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]] 1.88&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CCS:CARBOXYMETHYLATED+CYSTEINE'>CCS</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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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=1dss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dss OCA], [https://pdbe.org/1dss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dss RCSB], [https://www.ebi.ac.uk/pdbsum/1dss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dss ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/G3P_PANVR G3P_PANVR]
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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/ds/1dss_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=1dss ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1DSS is a [[http://en.wikipedia.org/wiki/Single_protein Single protein]] structure of sequence from [[http://en.wikipedia.org/wiki/Palinurus_versicolor Palinurus versicolor]] with SO4 and NAD as [[http://en.wikipedia.org/wiki/ligands ligands]]. Active as [[http://en.wikipedia.org/wiki/Glyceraldehyde-3-phosphate_dehydrogenase_(phosphorylating) Glyceraldehyde-3-phosphate dehydrogenase (phosphorylating)]], with EC number [[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.1.12 1.2.1.12]]. Structure known Active Sites: AVG and AVR. Full crystallographic information is available from [[http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DSS OCA]].
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*[[Aldehyde dehydrogenase 3D structures|Aldehyde dehydrogenase 3D structures]]
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*[[Glyceraldehyde-3-phosphate dehydrogenase 3D structures|Glyceraldehyde-3-phosphate dehydrogenase 3D structures]]
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==Reference==
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__TOC__
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Structure of active site carboxymethylated D-glyceraldehyde-3-phosphate dehydrogenase from Palinurus versicolor., Song SY, Xu YB, Lin ZJ, Tsou CL, J Mol Biol. 1999 Apr 9;287(4):719-25. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10191140 10191140]
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</StructureSection>
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[[Category: Glyceraldehyde-3-phosphate dehydrogenase (phosphorylating)]]
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[[Category: Large Structures]]
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[[Category: Palinurus versicolor]]
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[[Category: Panulirus versicolor]]
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[[Category: Single protein]]
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[[Category: Lin Z]]
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[[Category: Lin, Z.]]
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[[Category: Song S]]
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[[Category: Song, S.]]
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[[Category: NAD]]
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[[Category: SO4]]
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[[Category: 'the-half-of-sites' reaction]]
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[[Category: active-site carboxymethylation]]
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[[Category: crystal structure]]
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[[Category: d-glyceraldehyde-3-phosphate-dehydrogenase]]
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[[Category: molecular symmetry]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Oct 30 12:33:07 2007''
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Current revision

STRUCTURE OF ACTIVE-SITE CARBOXYMETHYLATED D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM PALINURUS VERSICOLOR

PDB ID 1dss

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