1do8

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[[Image:1do8.gif|left|200px]]<br /><applet load="1do8" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1do8, resolution 2.2&Aring;" />
 
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'''CRYSTAL STRUCTURE OF A CLOSED FORM OF HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF A CLOSED FORM OF HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME==
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Malic enzymes are widely distributed in nature and have many biological functions. The crystal structure of human mitochondrial NAD(P)+-dependent malic enzyme in a quaternary complex with NAD+, Mn++ and oxalate has been determined at 2.2 A resolution. The structures of the quaternary complex with NAD+, Mg++, tartronate or ketomalonate have been determined at 2.6 A resolution. The structures show the enzyme in a closed form in these complexes and reveal the binding modes of the cation and the inhibitors. The divalent cation is coordinated in an octahedral fashion by six ligating oxygens, two from the substrate/inhibitor, three from Glu 255, Asp 256 and Asp 279 of the enzyme, and one from a water molecule. The structural information has significant implications for the catalytic mechanism of malic enzymes and identifies Tyr 112 and Lys 183 as possible catalytic residues. Changes in tetramer organization of the enzyme are also observed in these complexes, which might be relevant for its cooperative behavior and allosteric control.
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<StructureSection load='1do8' size='340' side='right'caption='[[1do8]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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== Structural highlights ==
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==Disease==
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<table><tr><td colspan='2'>[[1do8]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DO8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DO8 FirstGlance]. <br>
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Known disease associated with this structure: Epilepsy, idopathic generalized, susceptibility to OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=154270 154270]]
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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]] 2.2&#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=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene></td></tr>
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==About this Structure==
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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=1do8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1do8 OCA], [https://pdbe.org/1do8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1do8 RCSB], [https://www.ebi.ac.uk/pdbsum/1do8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1do8 ProSAT]</span></td></tr>
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1DO8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=OXL:'>OXL</scene>, <scene name='pdbligand=MN:'>MN</scene> and <scene name='pdbligand=NAD:'>NAD</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Malate_dehydrogenase_(decarboxylating) Malate dehydrogenase (decarboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.39 1.1.1.39] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DO8 OCA].
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</table>
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== Function ==
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==Reference==
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[https://www.uniprot.org/uniprot/MAOM_HUMAN MAOM_HUMAN]
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Structure of a closed form of human malic enzyme and implications for catalytic mechanism., Yang Z, Floyd DL, Loeber G, Tong L, Nat Struct Biol. 2000 Mar;7(3):251-7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10700286 10700286]
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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/do/1do8_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=1do8 ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Malate dehydrogenase (decarboxylating)]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Floyd DL]]
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[[Category: Floyd, D L.]]
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[[Category: Loeber G]]
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[[Category: Loeber, G.]]
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[[Category: Tong L]]
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[[Category: Tong, L.]]
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[[Category: Yang Z]]
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[[Category: Yang, Z.]]
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[[Category: MN]]
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[[Category: NAD]]
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[[Category: OXL]]
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[[Category: and one mostly extended]]
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[[Category: four domains: one with rossmann fold]]
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[[Category: one mostly helical]]
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[[Category: one with parallel alpha-beta fold]]
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[[Category: oxidative decarboxylase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:18:41 2008''
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Current revision

CRYSTAL STRUCTURE OF A CLOSED FORM OF HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME

PDB ID 1do8

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