› 3ajg

X-ray diffraction
1.9Å resolution

Crystal structure of PcyA V225D-biliverdin IX alpha complex

Released:
DOI: 10.2210/pdb3ajg/pdb
PDB entry 3ajg coloured by chain, front view.
PDB entry 3ajg coloured by chain, side view.
PDB entry 3ajg coloured by chain, top view.
Source organism: Synechocystis sp. PCC 6803
Primary publication:
One residue substitution in PcyA leads to unexpected changes in tetrapyrrole substrate binding.
Wada K, Hagiwara Y, Yutani Y, Fukuyama K
Biochem Biophys Res Commun 402 373-7 (2010)
PMID: 20946883

Function and Biology Details

Reaction catalysed: 
(3Z)-phycocyanobilin + 4 oxidized ferredoxin = biliverdin IX-alpha + 4 reduced ferredoxin
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176303 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phycocyanobilin:ferredoxin oxidoreductase Chains: A, B
Molecule details ›
Chains: A, B
Length: 248 amino acids
Theoretical weight: 28.17 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli
UniProt:
  • Canonical: Q55891 (Residues: 1-248; Coverage: 100%)
Gene names: pcyA, slr0116
Sequence domains: Ferredoxin-dependent bilin reductase
Structure domains: oxygen-dependent coproporphyrinogen oxidase

Ligands and Environments

1 bound ligand:
Ligand BLA 2 x BLA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 74.046Å b: 74.875Å c: 84.169Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.232 0.231 0.295
Expression system: Escherichia coli

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Citations

1 citations in other articles

Atomic-resolution structure of the phycocyanobilin:ferredoxin oxidoreductase I86D mutant in complex with fully protonated biliverdin.
Hagiwara et al. (2016)