› 2nyq

X-ray diffraction
2.5Å resolution

Structure of Vibrio proteolyticus aminopeptidase with a bound Trp fragment of dLWCF

Released:
DOI: 10.2210/pdb2nyq/pdb
PDB entry 2nyq coloured by chain, front view.
PDB entry 2nyq coloured by chain, side view.
PDB entry 2nyq coloured by chain, top view.
Source organisms:
Entry authors: Bennett B, Kumar A, Narayanan B, Kim J-J

Function and Biology Details

Reaction catalysed: 
Release of an N-terminal amino acid, preferentially leucine, but not glutamic or aspartic acids.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-163086 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Bacterial leucyl aminopeptidase Chain: A
Molecule details ›
Chain: A
Length: 299 amino acids
Theoretical weight: 32.24 KDa
Source organism: Vibrio proteolyticus
UniProt:
  • Canonical: Q01693 (Residues: 107-405; Coverage: 62%)
Sequence domains: Peptidase family M28
Structure domains: Zn peptidases
Tetrapeptide Chain: B
Molecule details ›
Chain: B
Length: 4 amino acids
Theoretical weight: 568 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
1 modified residue:
Ligand DLE 1 x DLE

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P6122
Unit cell:
a: 107.8Å b: 107.8Å c: 99.6Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.191 0.191 0.256
Expression system: Not provided

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