› 1vje

X-ray diffraction
1.64Å resolution

Crystal structure of a autoinducer-2 synthesis protein with bound selenomethionine

Released:
DOI: 10.2210/pdb1vje/pdb
PDB entry 1vje coloured by chain, front view.
PDB entry 1vje coloured by chain, side view.
PDB entry 1vje coloured by chain, top view.
Source organism: Deinococcus radiodurans
Primary publication:
A structural genomics approach to the study of quorum sensing: crystal structures of three LuxS orthologs.
Lewis HA, Furlong EB, Laubert B, Eroshkina GA, Batiyenko Y, Adams JM, Bergseid MG, Marsh CD, Peat TS, Sanderson WE, Sauder JM, Buchanan SG
Structure 9 527-37 (2001)
PMID: 11435117

Function and Biology Details

Reaction catalysed: 
S-(5-deoxy-D-ribos-5-yl)-L-homocysteine = L-homocysteine + (4S)-4,5-dihydroxypentan-2,3-dione
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193248 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
S-ribosylhomocysteine lyase Chains: A, B
Molecule details ›
Chains: A, B
Length: 166 amino acids
Theoretical weight: 18.42 KDa
Source organism: Deinococcus radiodurans
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9RRU8 (Residues: 1-158; Coverage: 100%)
Gene names: DR_2387, luxS
Sequence domains: S-Ribosylhomocysteinase (LuxS)
Structure domains: S-ribosylhomocysteinase (LuxS)

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand MSE 2 x MSE
1 modified residue:
Ligand CSD 2 x CSD

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 32-ID
Spacegroup: P21
Unit cell:
a: 43.548Å b: 81.917Å c: 49.327Å
α: 90° β: 102.81° γ: 90°
R-values:
R R work R free
0.188 0.188 0.215
Expression system: Escherichia coli

Quick links

Citations

12 review citations

Making 'sense' of metabolism: autoinducer-2, LuxS and pathogenic bacteria.
Vendeville et al. (2005)
11 more

3 mentions without citation

Structural features and functional implications of proteins enabling the robustness of Deinococcus radiodurans.
Chen et al. (2020)
2 more