› 2qyv

X-ray diffraction
2.11Å resolution

Crystal structure of putative Xaa-His dipeptidase (YP_718209.1) from Haemophilus somnus 129PT at 2.11 A resolution

Released:
DOI: 10.2210/pdb2qyv/pdb
PDB entry 2qyv coloured by chain, front view.
PDB entry 2qyv coloured by chain, side view.
PDB entry 2qyv coloured by chain, top view.
Source organism: Histophilus somni 129PT
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

Reaction catalysed: 
Preferential hydrolysis of the beta-Ala-|-His dipeptide (carnosine), and also anserine, Xaa-|-His dipeptides and other dipeptides including homocarnosine.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170955 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peptidase M20 dimerisation domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 487 amino acids
Theoretical weight: 54.12 KDa
Source organism: Histophilus somni 129PT
Expression system: Escherichia coli
UniProt:
  • Canonical: Q0I1B9 (Residues: 1-486; Coverage: 100%)
Gene names: HS_0004, pepD
Sequence domains:
Structure domains: Zn peptidases

Ligands and Environments

4 bound ligands:
Ligand ZN 4 x ZN
Ligand SO4 18 x SO4
Ligand GOL 17 x GOL
Ligand IPA 3 x IPA
1 modified residue:
Ligand MSE 16 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P21212
Unit cell:
a: 173.922Å b: 84.293Å c: 123.204Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.221 0.22 0.244
Expression system: Escherichia coli

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