3ddy

From Proteopedia

(Difference between revisions)

Revision as of 18:12, 7 February 2016

Structure of lumazine protein, an optical transponder of luminescent bacteria

Structural highlights

3ddy is a 1 chain structure with sequence from "photobacterium_leiognathi_subsp._leiognathi"_(boisvert_et_al._1967)_ast_and_dunlap_2004 "photobacterium leiognathi subsp. leiognathi" (boisvert et al. 1967) ast and dunlap 2004. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Gene:	lumP ("Photobacterium leiognathi subsp. leiognathi" (Boisvert et al. 1967) Ast and Dunlap 2004)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum

Function

[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).

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

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.

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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Chatwell L, Illarionova V, Illarionov B, Eisenreich W, Huber R, Skerra A, Bacher A, Fischer M. Structure of lumazine protein, an optical transponder of luminescent bacteria. J Mol Biol. 2008 Sep 26;382(1):44-55. Epub 2008 Jun 26. PMID:18602927 doi:http://dx.doi.org/10.1016/j.jmb.2008.06.052

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ddy"

@@ Line 5: / Line 5: @@
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">lumP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=658 "Photobacterium leiognathi subsp. leiognathi" (Boisvert et al. 1967) Ast and Dunlap 2004])</td></tr>
-<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=3ddy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ddy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ddy RCSB], [http://www.ebi.ac.uk/pdbsum/3ddy PDBsum]</span></td></tr>
+<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=3ddy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ddy OCA], [http://pdbe.org/3ddy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ddy RCSB], [http://www.ebi.ac.uk/pdbsum/3ddy PDBsum]</span></td></tr>
 </table>
 == Function ==
@@ Line 17: / Line 17: @@
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 27: / Line 27: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3ddy" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>

3ddy

From Proteopedia

Revision as of 18:12, 7 February 2016

Structure of lumazine protein, an optical transponder of luminescent bacteria

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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