3ddy

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[[Image:3ddy.png|left|200px]]
 
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{{STRUCTURE_3ddy| PDB=3ddy | SCENE= }}
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==Structure of lumazine protein, an optical transponder of luminescent bacteria==
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<StructureSection load='3ddy' size='340' side='right'caption='[[3ddy]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3ddy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photobacterium_leiognathi_subsp._leiognathi Photobacterium leiognathi subsp. leiognathi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DDY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DDY FirstGlance]. <br>
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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]] 2.5&#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=RBF:RIBOFLAVIN'>RBF</scene></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=3ddy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ddy OCA], [https://pdbe.org/3ddy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ddy RCSB], [https://www.ebi.ac.uk/pdbsum/3ddy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ddy ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/LUXP_PHOLE LUXP_PHOLE] Antenna protein that modulates the color of the bioluminescence emission of the luciferase. In the presence of LumP, luciferase emission is shifted to higher energy values (shorter wavelength).
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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/dd/3ddy_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=3ddy 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 intensely fluorescent lumazine protein is believed to be involved in the bioluminescence of certain marine bacteria. The sequence of the catalytically inactive protein resembles that of the enzyme riboflavin synthase. Its non-covalently bound fluorophore, 6,7-dimethyl-8-ribityllumazine, is the substrate of this enzyme and also the committed precursor of vitamin B(2). An extensive crystallization screen was performed using numerous single-site mutants of the lumazine protein from Photobacterium leiognathi in complex with its fluorophore and with riboflavin, respectively. Only the L49N mutant in complex with riboflavin yielded suitable crystals, allowing X-ray structure determination to a resolution of 2.5 A. The monomeric protein folds into two closely similar domains that are structurally related by pseudo-C(2) symmetry, whereby the entire domain topology resembles that of riboflavin synthase. Riboflavin is bound to a shallow cavity in the N-terminal domain of lumazine protein, whereas the C-terminal domain lacks a ligand.
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===Structure of lumazine protein, an optical transponder of luminescent bacteria===
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Structure of lumazine protein, an optical transponder of luminescent bacteria.,Chatwell L, Illarionova V, Illarionov B, Eisenreich W, Huber R, Skerra A, Bacher A, Fischer M J Mol Biol. 2008 Sep 26;382(1):44-55. Epub 2008 Jun 26. PMID:18602927<ref>PMID:18602927</ref>
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{{ABSTRACT_PUBMED_018602927}}
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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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==About this Structure==
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<div class="pdbe-citations 3ddy" style="background-color:#fffaf0;"></div>
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[[3ddy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Photobacterium_leiognathi Photobacterium leiognathi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DDY OCA].
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== References ==
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[[Category: Photobacterium leiognathi]]
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<references/>
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[[Category: Bacher, A.]]
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__TOC__
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[[Category: Chatwell, L.]]
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</StructureSection>
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[[Category: Fischer, M.]]
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[[Category: Large Structures]]
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[[Category: Illarionov, B.]]
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[[Category: Photobacterium leiognathi subsp. leiognathi]]
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[[Category: Illarionova, V.]]
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[[Category: Bacher A]]
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[[Category: Skerra, A.]]
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[[Category: Chatwell L]]
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[[Category: Lumazine protein]]
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[[Category: Fischer M]]
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[[Category: Luminescence]]
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[[Category: Illarionov B]]
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[[Category: Luminescent bacteria]]
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[[Category: Illarionova V]]
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[[Category: Luminescent protein]]
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[[Category: Skerra A]]
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[[Category: Photobacterium leiognathi]]
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[[Category: Riboflavin synthase]]
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Current revision

Structure of lumazine protein, an optical transponder of luminescent bacteria

PDB ID 3ddy

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