› 4la2

X-ray diffraction
1.6Å resolution

Crystal structure of dimethylsulphoniopropionate (DMSP) lyase DddQ

Released:
DOI: 10.2210/pdb4la2/pdb
PDB entry 4la2 coloured by chain, front view.
PDB entry 4la2 coloured by chain, side view.
PDB entry 4la2 coloured by chain, top view.
Source organism: Ruegeria lacuscaerulensis ITI-1157
Primary publication:
Molecular insight into bacterial cleavage of oceanic dimethylsulfoniopropionate into dimethyl sulfide.
Li CY, Wei TD, Zhang SH, Chen XL, Gao X, Wang P, Xie BB, Su HN, Qin QL, Zhang XY, Yu J, Zhang HH, Zhou BC, Yang GP, Zhang YZ
Proc Natl Acad Sci U S A 111 1026-31 (2014)
PMID: 24395783

Function and Biology Details

Reaction catalysed: 
S,S-dimethyl-beta-propiothetin = dimethyl sulfide + acrylate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-111946 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Dimethylsulfonioproprionate lyase DddQ Chains: A, B
Molecule details ›
Chains: A, B
Length: 198 amino acids
Theoretical weight: 22.02 KDa
Source organism: Ruegeria lacuscaerulensis ITI-1157
Expression system: Escherichia coli
UniProt:
  • Canonical: D0CY60 (Residues: 1-192; Coverage: 100%)
Gene names: SL1157_0332, dddQ
Sequence domains: Dimethlysulfonioproprionate lyase
Structure domains: Jelly Rolls

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand MES 2 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 48.383Å b: 85.303Å c: 87.457Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.197 0.216
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Evolution of Dimethylsulfoniopropionate Metabolism in Marine Phytoplankton and Bacteria.
Bullock et al. (2017)
1 more

3 mentions without citation

Molecular insight into bacterial cleavage of oceanic dimethylsulfoniopropionate into dimethyl sulfide.
Li et al. (2014)
2 more