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2a59

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[[Image:2a59.gif|left|200px]]
 
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{{Structure
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==Structure of 6,7-Dimethyl-8-ribityllumazine synthase from Schizosaccharomyces pombe mutant W27Y with bound ligand 5-nitroso-6-ribitylamino-2,4(1H,3H)-pyrimidinedione==
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|PDB= 2a59 |SIZE=350|CAPTION= <scene name='initialview01'>2a59</scene>, resolution 2.700&Aring;
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<StructureSection load='2a59' size='340' side='right'caption='[[2a59]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=LMZ:5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE'>LMZ</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>
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<table><tr><td colspan='2'>[[2a59]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A59 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2A59 FirstGlance]. <br>
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Riboflavin_synthase Riboflavin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.9 2.5.1.9] </span>
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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]] 2.7&#8491;</td></tr>
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|GENE= rib4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4896 Schizosaccharomyces pombe])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LMZ:5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE'>LMZ</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
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|DOMAIN=
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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=2a59 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a59 OCA], [https://pdbe.org/2a59 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2a59 RCSB], [https://www.ebi.ac.uk/pdbsum/2a59 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2a59 ProSAT]</span></td></tr>
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|RELATEDENTRY=[[1kyy|1KYY]], [[2a57|2A57]], [[2a58|2A58]], [[1kyv|1KYV]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2a59 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a59 OCA], [http://www.ebi.ac.uk/pdbsum/2a59 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2a59 RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/RIB4_SCHPO RIB4_SCHPO] 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. Also binds riboflavin with an unexpected high affinity.<ref>PMID:11856310</ref>
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== Evolutionary Conservation ==
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'''Structure of 6,7-Dimethyl-8-ribityllumazine synthase from Schizosaccharomyces pombe mutant W27Y with bound ligand 5-nitroso-6-ribitylamino-2,4(1H,3H)-pyrimidinedione'''
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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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==Overview==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a5/2a59_consurf.spt"</scriptWhenChecked>
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The amino acid residue tryptophan 27 of 6,7-dimethyl-8-ribityllumazine synthase of the yeast Schizosaccharomyces pombe was replaced by tyrosine. The structures of the W27Y mutant protein in complex with riboflavin, the substrate analogue 5-nitroso-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, and the product analogue 6-carboxyethyl-7-oxo-8-ribityllumazine, were determined by X-ray crystallography at resolutions of 2.7-2.8 A. Whereas the indole system of W27 forms a coplanar pi-complex with riboflavin, the corresponding phenyl ring in the W27Y mutant establishes only peripheral contact with the heterocyclic ring system of the bound riboflavin. These findings provide an explanation for the absence of the long wavelength shift in optical absorption spectra of riboflavin bound to the mutant enzyme. The structures of the mutants are important tools for the interpretation of the unusual physical properties of riboflavin in complex with lumazine synthase.
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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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==About this Structure==
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</jmolCheckbox>
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2A59 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A59 OCA].
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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=2a59 ConSurf].
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<div style="clear:both"></div>
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==Reference==
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== References ==
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Structural basis of charge transfer complex formation by riboflavin bound to 6,7-dimethyl-8-ribityllumazine synthase., Koch M, Breithaupt C, GerhardtHaase S, Weber S, Cushman M, Huber R, Bacher A, Fischer M, Eur J Biochem. 2004 Aug;271(15):3208-14. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15265040 15265040]
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<references/>
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[[Category: Riboflavin synthase]]
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Schizosaccharomyces pombe]]
[[Category: Schizosaccharomyces pombe]]
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[[Category: Single protein]]
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[[Category: Bacher A]]
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[[Category: Bacher, A.]]
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[[Category: Breithaupt C]]
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[[Category: Breithaupt, C.]]
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[[Category: Cushman M]]
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[[Category: Cushman, M.]]
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[[Category: Fischer M]]
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[[Category: Fischer, M.]]
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[[Category: Gerhardt S]]
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[[Category: Gerhardt, S.]]
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[[Category: Haase I]]
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[[Category: Haase, I.]]
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[[Category: Huber R]]
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[[Category: Huber, R.]]
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[[Category: Koch M]]
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[[Category: Koch, M.]]
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[[Category: Weber S]]
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[[Category: Weber, S.]]
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[[Category: 5-nitroso-6-ribitylamino-2,4(1h,3h)-pyrimidinedione]]
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[[Category: 6,7-dimethyl-8-ribityllumazine synthase]]
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[[Category: lusy]]
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[[Category: mutant w27y]]
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[[Category: schizosaccharomyces pombe]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:48:00 2008''
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Current revision

Structure of 6,7-Dimethyl-8-ribityllumazine synthase from Schizosaccharomyces pombe mutant W27Y with bound ligand 5-nitroso-6-ribitylamino-2,4(1H,3H)-pyrimidinedione

PDB ID 2a59

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