› 4izd

X-ray diffraction
1.8Å resolution

Crystal structure of DmdD E121A in complex with MMPA-CoA

Released:
DOI: 10.2210/pdb4izd/pdb
PDB entry 4izd coloured by chain, front view.
PDB entry 4izd coloured by chain, side view.
PDB entry 4izd coloured by chain, top view.
Source organism: Ruegeria pomeroyi DSS-3
Primary publication:
Crystal structure of DmdD, a crotonase superfamily enzyme that catalyzes the hydration and hydrolysis of methylthioacryloyl-CoA.
Tan D, Crabb WM, Whitman WB, Tong L
OpenAccess logo PLoS One 8 e63870 (2013)
PMID: 23704947

Function and Biology Details

Reaction catalysed: 
(1a) 3-(methylsulfanyl)acryloyl-CoA + H(2)O = 3-hydroxy-3-(methylsulfanyl)propanoyl-CoA
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-177530 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Methylthioacryloyl-CoA hydratase Chains: A, B
Molecule details ›
Chains: A, B
Length: 275 amino acids
Theoretical weight: 29.88 KDa
Source organism: Ruegeria pomeroyi DSS-3
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q5LLW6 (Residues: 1-267; Coverage: 100%)
Gene names: SPO3805, dmdD
Sequence domains: Enoyl-CoA hydratase/isomerase
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand 1HE 2 x 1HE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P213
Unit cell:
a: 117.13Å b: 117.13Å c: 117.13Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.16 0.16 0.187
Expression system: Escherichia coli BL21

Quick links

Citations

2 review citations

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

1 mention without citation

Crystal structure of DmdD, a crotonase superfamily enzyme that catalyzes the hydration and hydrolysis of methylthioacryloyl-CoA.
Tan et al. (2013)