› 1t13

X-ray diffraction
2.9Å resolution

Crystal Structure Of Lumazine Synthase From Brucella Abortus Bound To 5-nitro-6-(D-ribitylamino)-2,4(1H,3H) pyrimidinedione

Released:
DOI: 10.2210/pdb1t13/pdb
PDB entry 1t13 coloured by chain, front view.
PDB entry 1t13 coloured by chain, side view.
PDB entry 1t13 coloured by chain, top view.
Source organism: Brucella abortus
Primary publication:
Crystallographic studies on decameric Brucella spp. Lumazine synthase: a novel quaternary arrangement evolved for a new function?
Klinke S, Zylberman V, Vega DR, Guimarães BG, Braden BC, Goldbaum FA
J Mol Biol 353 124-37 (2005)
PMID: 16165152

Function and Biology Details

Reaction catalysed: 
1-deoxy-L-glycero-tetrulose 4-phosphate + 5-amino-6-(D-ribitylamino)uracil = 6,7-dimethyl-8-(D-ribityl)lumazine + 2 H(2)O + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158310 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
6,7-dimethyl-8-ribityllumazine synthase 2 Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 158 amino acids
Theoretical weight: 17.38 KDa
Source organism: Brucella abortus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61711 (Residues: 1-158; Coverage: 100%)
Gene names: BruAb2_0535, ribH, ribH-2, ribH2
Sequence domains: 6,7-dimethyl-8-ribityllumazine synthase
Structure domains: Lumazine/riboflavin synthase

Ligands and Environments

2 bound ligands:
Ligand PO4 5 x PO4
Ligand INI 5 x INI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: LNLS BEAMLINE D03B-MX1
Spacegroup: P3121
Unit cell:
a: 126.321Å b: 126.321Å c: 165.669Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.217 0.217 0.254
Expression system: Escherichia coli BL21(DE3)

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Citations

5 review citations

Overlapping riboflavin supply pathways in bacteria.
García-Angulo VA. (2017)
4 more

3 mentions without citation

A genomic approach to gene fusion technology.
Van Dyk et al. (2001)
2 more