› 3v3z

X-ray diffraction
2.9Å resolution

I(L177)H mutant structure of photosynthetic reaction center from Rhodobacter sphaeroides

Released:
DOI: 10.2210/pdb3v3z/pdb
PDB entry 3v3z coloured by chain, front view.
PDB entry 3v3z coloured by chain, side view.
PDB entry 3v3z coloured by chain, top view.
Source organism: Cereibacter sphaeroides
Primary publication:
The site-directed mutation I(L177)H in Rhodobacter sphaeroides reaction center affects coordination of P(A) and B(B) bacteriochlorophylls.
Vasilieva LG, Fufina TY, Gabdulkhakov AG, Leonova MM, Khatypov RA, Shuvalov VA
Biochim Biophys Acta 1817 1407-17 (2012)
PMID: 22365928

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142934 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Reaction center protein H chain Chain: H
Molecule details ›
Chain: H
Length: 241 amino acids
Theoretical weight: 26.17 KDa
Source organism: Cereibacter sphaeroides
Expression system: Cereibacter sphaeroides
UniProt:
  • Canonical: P0C0Y7 (Residues: 10-250; Coverage: 93%)
Gene name: puhA
Sequence domains:
Structure domains:
Reaction center protein L chain Chain: L
Molecule details ›
Chain: L
Length: 281 amino acids
Theoretical weight: 31.39 KDa
Source organism: Cereibacter sphaeroides
Expression system: Cereibacter sphaeroides
UniProt:
  • Canonical: P0C0Y8 (Residues: 2-282; Coverage: 100%)
Gene name: pufL
Sequence domains: Photosynthetic reaction centre protein
Structure domains: Photosystem II protein D1-like
Reaction center protein M chain Chain: M
Molecule details ›
Chain: M
Length: 302 amino acids
Theoretical weight: 33.89 KDa
Source organism: Cereibacter sphaeroides
Expression system: Cereibacter sphaeroides
UniProt:
  • Canonical: P0C0Y9 (Residues: 2-303; Coverage: 98%)
Gene name: pufM
Sequence domains: Photosynthetic reaction centre protein
Structure domains: Photosystem II protein D1-like

Ligands and Environments

11 bound ligands:
Ligand LDA 5 x LDA
Ligand PO4 5 x PO4
Ligand HTO 3 x HTO
Ligand DIO 2 x DIO
Ligand K 1 x K
Ligand BCL 4 x BCL
Ligand BPH 2 x BPH
Ligand U10 2 x U10
Ligand FE 1 x FE
Ligand SPN 1 x SPN
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X13
Spacegroup: P3121
Unit cell:
a: 140.13Å b: 140.13Å c: 186.03Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.204 0.251
Expression system: Cereibacter sphaeroides

Quick links

Citations

7 citation in other articles

Novel approaches for the lipid sponge phase crystallization of the Rhodobacter sphaeroides photosynthetic reaction center.
Selikhanov et al. (2020)
6 more

1 mention without citation

Properties and Crystal Structure of the Cereibacter sphaeroides Photosynthetic Reaction Center with Double Amino Acid Substitution I(L177)H + F(M197)H.
Fufina et al. (2023)