5esu

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==Crystal Structure of M. tuberculosis MenD bound to Mg2+ and Covalent Intermediate II (a ThDP + de-carboxylated 2-oxoglutarate + Isochorismate adduct)==
==Crystal Structure of M. tuberculosis MenD bound to Mg2+ and Covalent Intermediate II (a ThDP + de-carboxylated 2-oxoglutarate + Isochorismate adduct)==
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<StructureSection load='5esu' size='340' side='right' caption='[[5esu]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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<StructureSection load='5esu' size='340' side='right'caption='[[5esu]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5esu]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ESU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ESU FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5esu]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ESU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ESU FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TOI:(1~{R},2~{S},5~{S},6~{S})-2-[(1~{S})-1-[3-[(4-AZANYLIDENE-2-METHYL-1~{H}-PYRIMIDIN-5-YL)METHYL]-4-METHYL-5-[2-[OXIDANYL(PHOSPHONOOXY)PHOSPHORYL]OXYETHYL]-1,3-THIAZOL-3-IUM-2-YL]-1,4-BIS(OXIDANYL)-4-OXIDANYLIDENE-BUTYL]-6-OXIDANYL-5-(3-OXIDANYL-3-OXIDANYLIDENE-PROP-1-EN-2-YL)OXY-CYCLOHEX-3-ENE-1-CARBOXYLIC+ACID'>TOI</scene></td></tr>
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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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ess|5ess]], [[5eso|5eso]], [[5esd|5esd]], [[5erx|5erx]], [[5ery|5ery]]</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=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TOI:(1~{R},2~{S},5~{S},6~{S})-2-[(1~{S})-1-[3-[(4-AZANYLIDENE-2-METHYL-1~{H}-PYRIMIDIN-5-YL)METHYL]-4-METHYL-5-[2-[OXIDANYL(PHOSPHONOOXY)PHOSPHORYL]OXYETHYL]-1,3-THIAZOL-3-IUM-2-YL]-1,4-BIS(OXIDANYL)-4-OXIDANYLIDENE-BUTYL]-6-OXIDANYL-5-(3-OXIDANYL-3-OXIDANYLIDENE-PROP-1-EN-2-YL)OXY-CYCLOHEX-3-ENE-1-CARBOXYLIC+ACID'>TOI</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">menD, Rv0555 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</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=5esu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5esu OCA], [https://pdbe.org/5esu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5esu RCSB], [https://www.ebi.ac.uk/pdbsum/5esu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5esu ProSAT]</span></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid_synthase 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.2.1.9 2.2.1.9] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5esu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5esu OCA], [http://pdbe.org/5esu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5esu RCSB], [http://www.ebi.ac.uk/pdbsum/5esu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5esu ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/MEND_MYCTU MEND_MYCTU]] Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate (SEPHCHC).
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[https://www.uniprot.org/uniprot/MEND_MYCTU MEND_MYCTU] Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate (SEPHCHC).
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase]]
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[[Category: Large Structures]]
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[[Category: Myctu]]
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[[Category: Mycobacterium tuberculosis H37Rv]]
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[[Category: Baker, E N]]
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[[Category: Baker EN]]
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[[Category: Bashiri, G]]
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[[Category: Bashiri G]]
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[[Category: Bulloch, E M.M]]
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[[Category: Bulloch EMM]]
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[[Category: Jirgis, E N.M]]
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[[Category: Jirgis ENM]]
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[[Category: Johnston, J M]]
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[[Category: Johnston JM]]
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[[Category: 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate synthase]]
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[[Category: Menaquinone biosynthesis]]
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[[Category: Mend]]
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[[Category: Pyruvate oxidase family]]
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[[Category: Thiamin-diphosphate dependent enzyme]]
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[[Category: Transferase]]
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Revision as of 08:21, 12 July 2023

Crystal Structure of M. tuberculosis MenD bound to Mg2+ and Covalent Intermediate II (a ThDP + de-carboxylated 2-oxoglutarate + Isochorismate adduct)

PDB ID 5esu

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