› 5b15

X-ray diffraction
1.39Å resolution

Crystal Structure of Metallo-beta-Lactamase SMB-1 Bound to Hydrolyzed Doripenem

Released:
DOI: 10.2210/pdb5b15/pdb
PDB entry 5b15 coloured by chain, front view.
PDB entry 5b15 coloured by chain, side view.
PDB entry 5b15 coloured by chain, top view.
Source organism: Serratia marcescens
Entry authors: Wachino J, Arakawa Y

Function and Biology Details

Reaction catalysed: 
A beta-lactam + H(2)O = a substituted beta-amino acid
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-124534 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Metallo-beta-lactamase domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 262 amino acids
Theoretical weight: 27.75 KDa
Source organism: Serratia marcescens
Expression system: Escherichia coli
UniProt:
  • Canonical: G5ELM3 (Residues: 19-280; Coverage: 100%)
Gene name: SMB-1
Sequence domains: Metallo-beta-lactamase superfamily
Structure domains: Ribonuclease Z/Hydroxyacylglutathione hydrolase-like

Ligands and Environments

4 bound ligands:
Ligand ZN 2 x ZN
Ligand NA 7 x NA
Ligand SO4 3 x SO4
Ligand DQM 1 x DQM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AichiSR BEAMLINE BL2S1
Spacegroup: P1
Unit cell:
a: 37.01Å b: 40.92Å c: 45.32Å
α: 107.57° β: 102.56° γ: 107.01°
R-values:
R R work R free
0.138 0.136 0.158
Expression system: Escherichia coli

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