› 3ada

X-ray diffraction
2.2Å resolution

Heterotetrameric Sarcosine Oxidase from Corynebacterium sp. U-96 in complex with sulfite

Released:
DOI: 10.2210/pdb3ada/pdb
Model geometry
Fit model/data
PDB entry 3ada coloured by chain, front view.
PDB entry 3ada coloured by chain, side view.
PDB entry 3ada coloured by chain, top view.
Source organism: Corynebacterium sp. U-96
Primary publication:
Channeling and conformational changes in the heterotetrameric sarcosine oxidase from Corynebacterium sp. U-96.
Moriguchi T, Ida K, Hikima T, Ueno G, Yamamoto M, Suzuki H
J Biochem 148 491-505 (2010)
PMID: 20675294

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175903 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Sarcosine oxidase subunit alpha Chain: A
Molecule details ›
Chain: A
Length: 964 amino acids
Theoretical weight: 102.85 KDa
Source organism: Corynebacterium sp. U-96
Expression system: Escherichia coli
UniProt:
  • Canonical: Q50LF0 (Residues: 2-965; Coverage: 100%)
Gene name: soxA
Sequence domains:
Structure domains: Probable tRNA modification gtpase trme; domain 1
Sarcosine oxidase subunit beta Chain: B
Molecule details ›
Chain: B
Length: 399 amino acids
Theoretical weight: 43.54 KDa
Source organism: Corynebacterium sp. U-96
Expression system: Escherichia coli
UniProt:
  • Canonical: Q50LF2 (Residues: 7-405; Coverage: 99%)
Gene name: soxB
Sequence domains: FAD dependent oxidoreductase
Structure domains:
Sarcosine oxidase subunit gamma Chain: C
Sarcosine oxidase subunit delta Chain: D

Ligands and Environments

6 bound ligands:
Ligand NAD 1 x NAD
Ligand SO4 8 x SO4
Ligand FAD 1 x FAD
Ligand FMN 1 x FMN
Ligand SO3 1 x SO3
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P6522
Unit cell:
a: 198.797Å b: 198.797Å c: 197.077Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.191 0.189 0.232
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Homeostasis and catabolism of choline and glycine betaine: lessons from Pseudomonas aeruginosa.
Wargo MJ. (2013)
1 more

2 mentions without citation

Structure-Function Relationships in l-Amino Acid Deaminase, a Flavoprotein Belonging to a Novel Class of Biotechnologically Relevant Enzymes.
Motta et al. (2016)
1 more