2cvq

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(New page: 200px<br /><applet load="2cvq" size="450" color="white" frame="true" align="right" spinBox="true" caption="2cvq, resolution 2.08&Aring;" /> '''Crystal structure of...)
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[[Image:2cvq.gif|left|200px]]<br /><applet load="2cvq" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="2cvq, resolution 2.08&Aring;" />
 
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'''Crystal structure of NAD(H)-dependent malate dehydrogenase complexed with NADPH'''<br />
 
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==Overview==
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==Crystal structure of NAD(H)-dependent malate dehydrogenase complexed with NADPH==
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For better understanding of the coenzyme specificity in NAD-dependent MDH, (tMDH) from Thermus flavus AT-62, we determined the crystal structures of, tMDH-NADP(H) complex at maximally 1.65 A resolution. The overall structure, is almost the same as that of the tMDH-NADH complex. However, NADP(H), binds to tMDH in the reverse orientation, where adenine occupies the, position near the catalytic center and nicotinamide is positioned at the, adenine binding site of the tMDH-NADH complex. Consistent with this, kinetic analysis of the malate-oxidizing reaction revealed that NADP(+), inhibited tMDH at high concentrations. This has provided the first, evidence for the alternative binding mode of the nicotinamide coenzyme, that has pseudo-symmetry in its structure, in a single enzyme.
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<StructureSection load='2cvq' size='340' side='right'caption='[[2cvq]], [[Resolution|resolution]] 2.08&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2cvq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CVQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CVQ 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]] 2.08&#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=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=2cvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cvq OCA], [https://pdbe.org/2cvq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cvq RCSB], [https://www.ebi.ac.uk/pdbsum/2cvq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cvq ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/MDH_THETH MDH_THETH] Catalyzes the reversible oxidation of malate to oxaloacetate.
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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/cv/2cvq_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=2cvq 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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2CVQ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with NAP and TRS as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Malate_dehydrogenase Malate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.37 1.1.1.37] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2CVQ OCA].
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*[[Malate Dehydrogenase 3D structures|Malate Dehydrogenase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystal structure of NAD-dependent malate dehydrogenase complexed with NADP(H)., Tomita T, Fushinobu S, Kuzuyama T, Nishiyama M, Biochem Biophys Res Commun. 2005 Aug 26;334(2):613-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16009341 16009341]
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[[Category: Large Structures]]
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[[Category: Malate dehydrogenase]]
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[[Category: Single protein]]
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[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
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[[Category: Fushinobu, S.]]
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[[Category: Fushinobu S]]
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[[Category: Kuzuyama, T.]]
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[[Category: Kuzuyama T]]
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[[Category: Nishiyama, M.]]
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[[Category: Nishiyama M]]
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[[Category: Tomita, T.]]
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[[Category: Tomita T]]
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[[Category: NAP]]
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[[Category: TRS]]
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[[Category: nad-dependent-mdh nadp+ complex]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 09:17:26 2007''
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Current revision

Crystal structure of NAD(H)-dependent malate dehydrogenase complexed with NADPH

PDB ID 2cvq

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