› 3eq1

X-ray diffraction
2.8Å resolution

The Crystal Structure of Human Porphobilinogen Deaminase at 2.8A resolution

Released:
DOI: 10.2210/pdb3eq1/pdb
PDB entry 3eq1 coloured by chain, front view.
PDB entry 3eq1 coloured by chain, side view.
PDB entry 3eq1 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of human porphobilinogen deaminase at 2.8 A: the molecular basis of acute intermittent porphyria.
Gill R, Kolstoe SE, Mohammed F, Al D-Bass A, Mosely JE, Sarwar M, Cooper JB, Wood SP, Shoolingin-Jordan PM
Biochem J 420 17-25 (2009)
PMID: 19207107

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-140114 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Porphobilinogen deaminase Chains: A, B
Molecule details ›
Chains: A, B
Length: 361 amino acids
Theoretical weight: 39.35 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P08397 (Residues: 1-361; Coverage: 100%)
Gene names: HMBS, PBGD, UPS
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand DPM 2 x DPM
1 bound ligand:
Ligand SO4 7 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P21212
Unit cell:
a: 81.083Å b: 104.435Å c: 109.732Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.262 0.259 0.289
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Mitochondria and Iron: current questions.
Paul et al. (2017)
7 more

11 mentions without citation

Acute Intermittent Porphyria: An Overview of Therapy Developments and Future Perspectives Focusing on Stabilisation of HMBS and Proteostasis Regulators.
Bustad et al. (2021)
10 more