› 2b99

X-ray diffraction
2.22Å resolution

Crystal Structure of an archaeal pentameric riboflavin synthase Complex with a Substrate analog inhibitor

Released:
DOI: 10.2210/pdb2b99/pdb
PDB entry 2b99 coloured by chain, front view.
PDB entry 2b99 coloured by chain, side view.
PDB entry 2b99 coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii
Primary publication:
Crystal structure of an archaeal pentameric riboflavin synthase in complex with a substrate analog inhibitor: stereochemical implications.
Ramsperger A, Augustin M, Schott AK, Gerhardt S, Krojer T, Eisenreich W, Illarionov B, Cushman M, Bacher A, Huber R, Fischer M
J Biol Chem 281 1224-32 (2006)
PMID: 16272154

Function and Biology Details

Reaction catalysed: 
2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176651 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Riboflavin synthase Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 156 amino acids
Theoretical weight: 17.52 KDa
Source organism: Methanocaldococcus jannaschii
Expression system: Escherichia coli
UniProt:
  • Canonical: Q58584 (Residues: 1-156; Coverage: 100%)
Gene names: MJ1184, ribC
Sequence domains: 6,7-dimethyl-8-ribityllumazine synthase
Structure domains: Lumazine/riboflavin synthase

Ligands and Environments

1 bound ligand:
Ligand RDL 10 x RDL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P1
Unit cell:
a: 41.94Å b: 72.912Å c: 72.782Å
α: 68.5° β: 74.39° γ: 74.53°
R-values:
R R work R free
0.258 0.258 0.296
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Genetic control of biosynthesis and transport of riboflavin and flavin nucleotides and construction of robust biotechnological producers.
Abbas et al. (2011)
8 more

2 mentions without citation

Evolution of vitamin B2 biosynthesis: 6,7-dimethyl-8-ribityllumazine synthases of Brucella.
Zylberman et al. (2006)
1 more