› 5h6o

X-ray diffraction
2.7Å resolution

Porphobilinogen deaminase from Vibrio Cholerae

Released:
DOI: 10.2210/pdb5h6o/pdb
PDB entry 5h6o coloured by chain, front view.
PDB entry 5h6o coloured by chain, side view.
PDB entry 5h6o coloured by chain, top view.
Source organism: Vibrio cholerae
Entry authors: Funamizu T, Chen M, Tanaka Y, Ishimori K, Uchida T

Function and Biology Details

Reaction catalysed: 
4 porphobilinogen + H(2)O = hydroxymethylbilane + 4 NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192142 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Porphobilinogen deaminase Chain: A
Molecule details ›
Chain: A
Length: 317 amino acids
Theoretical weight: 34.63 KDa
Source organism: Vibrio cholerae
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9KVM1 (Residues: 1-311; Coverage: 100%)
Gene names: VC_0120, hemC
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand DPM 1 x DPM
1 bound ligand:
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: I4122
Unit cell:
a: 94.23Å b: 94.23Å c: 165.34Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.238 0.236 0.277
Expression system: Escherichia coli BL21(DE3)

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