› 3b40

X-ray diffraction
2Å resolution

Crystal structure of the probable dipeptidase PvdM from Pseudomonas aeruginosa

Released:
DOI: 10.2210/pdb3b40/pdb
PDB entry 3b40 coloured by chain, front view.
PDB entry 3b40 coloured by chain, side view.
PDB entry 3b40 coloured by chain, top view.
Source organism: Pseudomonas aeruginosa
Entry authors: Bonanno JB, Patskovsky Y, Dickey M, Bain KT, Mendoza M, Fong R, Smith D, Wasserman S, Sauder JM, Burley SK, Almo SC, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176969 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
PvdM Chain: A
Molecule details ›
Chain: A
Length: 417 amino acids
Theoretical weight: 45.81 KDa
Source organism: Pseudomonas aeruginosa
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5DIQ1 (Residues: 34-448; Coverage: 93%)
Gene name: pvdM
Sequence domains: Membrane dipeptidase (Peptidase family M19)
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand CD 2 x CD
Ligand MG 1 x MG
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: I23
Unit cell:
a: 147.123Å b: 147.123Å c: 147.123Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.194 0.192 0.233
Expression system: Escherichia coli BL21(DE3)

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