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1hyg

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[[Image:1hyg.jpg|left|200px]]
 
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==Crystal structure of MJ0490 gene product, the family of lactate/malate dehydrogenase==
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The line below this paragraph, containing "STRUCTURE_1hyg", creates the "Structure Box" on the page.
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<StructureSection load='1hyg' size='340' side='right'caption='[[1hyg]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1hyg]] 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=1HYG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1HYG FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.8&#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=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
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{{STRUCTURE_1hyg| PDB=1hyg | SCENE= }}
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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=1hyg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hyg OCA], [https://pdbe.org/1hyg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1hyg RCSB], [https://www.ebi.ac.uk/pdbsum/1hyg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1hyg ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/MDH_METJA MDH_METJA] Catalyzes the reversible oxidation of malate to oxaloacetate. Also catalyzes the reduction of sulfopyruvate, but not pyruvate, nor alpha-ketoglutarate. Higher selectivity for the coenzyme NADPH.<ref>PMID:10850983</ref> <ref>PMID:10998181</ref>
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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/hy/1hyg_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=1hyg ConSurf].
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<div style="clear:both"></div>
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'''CRYSTAL STRUCTURE OF MJ0490 GENE PRODUCT, THE FAMILY OF LACTATE/MALATE DEHYDROGENASE'''
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==See Also==
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*[[Lactate dehydrogenase 3D structures|Lactate dehydrogenase 3D structures]]
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== References ==
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==Overview==
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<references/>
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The MJ0490 gene, one of the only two genes of Methanococcus jannaschii showing sequence similarity to the lactate/malate family of dehydrogenases, was classified initially as coding for a putative l-lactate dehydrogenase (LDH). It has been re-classified as a malate dehydrogenase (MDH) gene, because it shows significant sequence similarity to MT0188, MDH II from Methanobacterium thermoautotrophicum strain DeltaH. The three-dimensional structure of its gene product has been determined in two crystal forms: a "dimeric" structure in the orthorhombic crystal at 1.9 A resolution and a "tetrameric" structure in the tetragonal crystal at 2.8 A. These structures share a similar subunit fold with other LDHs and MDHs. The tetrameric structure resembles typical tetrameric LDHs. The dimeric structure is equivalent to the P-dimer of tetrameric LDHs, unlike dimeric MDHs, which correspond to the Q-dimer. The structure reveals that the cofactor NADP(H) is bound at the active site, despite the fact that it was not intentionally added during protein purification and crystallization. The preference of NADP(H) over NAD(H) has been supported by activity assays. The cofactor preference is explained by the presence of a glycine residue in the cofactor binding pocket (Gly33), which replaces a conserved aspartate (or glutamate) residue in other NAD-dependent LDHs or MDHs. Preference for NADP(H) is contributed by hydrogen bonds between the oxygen atoms of the monophosphate group and the ribose sugar of adenosine in NADP(H) and the side-chains of Ser9, Arg34, His36, and Ser37. The MDH activity of MJ0490 is made possible by Arg86, which is conserved in MDHs but not in LDHs. The enzymatic assay showed that the MJ0490 protein possesses the fructose-1,6-bisphosphate-activated LDH activity (reduction). Thus the MJ0490 gene product appears to be a novel member of the lactate/malate dehydrogenase family, displaying an LDH scaffold and exhibiting a relaxed substrate and cofactor specificities in NADP(H) and NAD(H)-dependent malate and lactate dehydrogenase reactions.
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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1HYG is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HYG OCA].
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==Reference==
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Crystal structure of the MJ0490 gene product of the hyperthermophilic archaebacterium Methanococcus jannaschii, a novel member of the lactate/malate family of dehydrogenases., Lee BI, Chang C, Cho SJ, Eom SH, Kim KK, Yu YG, Suh SW, J Mol Biol. 2001 Apr 13;307(5):1351-62. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11292347 11292347]
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[[Category: Methanocaldococcus jannaschii]]
[[Category: Methanocaldococcus jannaschii]]
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[[Category: Oxidoreductase]]
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[[Category: Chang C]]
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[[Category: Single protein]]
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[[Category: Cho S-J]]
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[[Category: Chang, C.]]
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[[Category: Lee BI]]
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[[Category: Cho, S J.]]
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[[Category: Suh SW]]
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[[Category: Lee, B I.]]
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[[Category: Suh, S W.]]
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[[Category: Nucloetide binding domain]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 19:21:36 2008''
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Current revision

Crystal structure of MJ0490 gene product, the family of lactate/malate dehydrogenase

PDB ID 1hyg

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