2vi5

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[[Image:2vi5.png|left|200px]]
 
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==LUMAZINE SYNTHASE FROM MYCOBACTERIUM TUBERCULOSIS BOUND TO N-6-(ribitylamino)pyrimidine-2,4(1H,3H)-dione-5-yl-propionamide==
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The line below this paragraph, containing "STRUCTURE_2vi5", creates the "Structure Box" on the page.
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<StructureSection load='2vi5' size='340' side='right'caption='[[2vi5]], [[Resolution|resolution]] 2.30&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'>[[2vi5]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VI5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VI5 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]] 2.3&#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=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=Y19:1-DEOXY-1-{[(5S)-2,6-DIOXO-5-(PROPANOYLAMINO)-1,2,5,6-TETRAHYDROPYRIMIDIN-4-YL]AMINO}-D-RIBITOL'>Y19</scene></td></tr>
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{{STRUCTURE_2vi5| PDB=2vi5 | 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=2vi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vi5 OCA], [https://pdbe.org/2vi5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vi5 RCSB], [https://www.ebi.ac.uk/pdbsum/2vi5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vi5 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RISB_MYCTU RISB_MYCTU] Catalyzes the formation of 6,7-dimethyl-8-ribityllumazine by condensation of 5-amino-6-(D-ribitylamino)uracil with 3,4-dihydroxy-2-butanone 4-phosphate. This is the penultimate step in the biosynthesis of riboflavin.<ref>PMID:15723519</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/vi/2vi5_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=2vi5 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The penultimate step in the biosynthesis of riboflavin is catalyzed by lumazine synthase. Three metabolically stable analogues of the hypothetical intermediate proposed to arise after phosphate elimination in the lumazine synthase-catalyzed reaction were synthesized and evaluated as lumazine synthase inhibitors. All three intermediate analogues were inhibitors of Mycobacterium tuberculosis lumazine synthase, Bacillus subtilis lumazine synthase, and Schizosaccharomyces pombe lumazine synthase, while one of them proved to be an extremely potent inhibitor of Escherichia coli riboflavin synthase with a Ki of 1.3 nM. The crystal structure of M. tuberculosis lumazine synthase in complex with one of the inhibitors provides a model of the conformation of the intermediate occurring immediately after phosphate elimination, supporting a mechanism in which phosphate elimination occurs before a conformational change of the Schiff base intermediate toward a cyclic structure.
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===LUMAZINE SYNTHASE FROM MYCOBACTERIUM TUBERCULOSIS BOUND TO N-6-(RIBITYLAMINO)PYRIMIDINE-2,4(1H,3H)-DIONE-5-YL-PROPIONAMIDE===
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A New Series of N-[2,4-Dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic Acid Derivatives as Inhibitors of Lumazine Synthase and Riboflavin Synthase: Design, Synthesis, Biochemical Evaluation, Crystallography, and Mechanistic Implications.,Zhang Y, Illarionov B, Morgunova E, Jin G, Bacher A, Fischer M, Ladenstein R, Cushman M J Org Chem. 2008 Apr 4;73(7):2715-2724. Epub 2008 Mar 11. PMID:18331058<ref>PMID:18331058</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_18331058}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2vi5" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 18331058 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18331058}}
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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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[[2vi5]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VI5 OCA].
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==Reference==
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<ref group="xtra">PMID:018331058</ref><references group="xtra"/>
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[[Category: Mycobacterium tuberculosis]]
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[[Category: Riboflavin synthase]]
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[[Category: Bacher, A.]]
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[[Category: Cushman, M.]]
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[[Category: Fischer, M.]]
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[[Category: Illarionov, B.]]
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[[Category: Jin, G.]]
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[[Category: Ladenstein, R.]]
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[[Category: Morgunova, E.]]
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[[Category: Zhang, Y.]]
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[[Category: Lumazine synthase]]
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[[Category: Mycobacterium tuberculosis]]
[[Category: Mycobacterium tuberculosis]]
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[[Category: Riboflavin biosynthesis]]
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[[Category: Bacher A]]
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[[Category: Transferase]]
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[[Category: Cushman M]]
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[[Category: Fischer M]]
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[[Category: Illarionov B]]
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[[Category: Jin G]]
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[[Category: Ladenstein R]]
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[[Category: Morgunova E]]
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[[Category: Zhang Y]]

Current revision

LUMAZINE SYNTHASE FROM MYCOBACTERIUM TUBERCULOSIS BOUND TO N-6-(ribitylamino)pyrimidine-2,4(1H,3H)-dione-5-yl-propionamide

PDB ID 2vi5

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