› 2hj6

X-ray diffraction
3Å resolution

Reaction centre from Rhodobacter sphaeroides strain R-26.1 complexed with dibrominated phosphatidylserine

Released:
DOI: 10.2210/pdb2hj6/pdb
PDB entry 2hj6 coloured by chain, front view.
PDB entry 2hj6 coloured by chain, side view.
PDB entry 2hj6 coloured by chain, top view.
Source organism: Cereibacter sphaeroides
Primary publication:
Brominated lipids identify lipid binding sites on the surface of the reaction center from Rhodobacter sphaeroides.
Roszak AW, Gardiner AT, Isaacs NW, Cogdell RJ
Biochemistry 46 2909-16 (2007)
PMID: 17315985

Function and Biology Details

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

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 L chain Chain: L
Molecule details ›
Chain: L
Length: 281 amino acids
Theoretical weight: 31.35 KDa
Source organism: 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: 307 amino acids
Theoretical weight: 34.4 KDa
Source organism: Cereibacter sphaeroides
UniProt:
  • Canonical: P0C0Y9 (Residues: 2-308; Coverage: 100%)
Gene name: pufM
Sequence domains: Photosynthetic reaction centre protein
Structure domains: Photosystem II protein D1-like
Reaction center protein H chain Chain: H
Molecule details ›
Chain: H
Length: 260 amino acids
Theoretical weight: 28.07 KDa
Source organism: Cereibacter sphaeroides
UniProt:
  • Canonical: P0C0Y7 (Residues: 1-260; Coverage: 100%)
Gene name: puhA
Sequence domains:
Structure domains:

Ligands and Environments

11 bound ligands:
Ligand BCL 4 x BCL
Ligand BPH 2 x BPH
Ligand U10 2 x U10
Ligand FE 1 x FE
Ligand PO4 2 x PO4
Ligand HTO 1 x HTO
Ligand CDL 1 x CDL
Ligand PS2 1 x PS2
Ligand LDA 8 x LDA
Ligand GOL 2 x GOL
Ligand K 1 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX10.1
Spacegroup: P3121
Unit cell:
a: 139.355Å b: 139.355Å c: 183.217Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.177 0.174 0.227

Quick links

Citations

5 review citations

Overcoming barriers to membrane protein structure determination.
Bill et al. (2011)
4 more

1 mention without citation

Prediction of Ordered Water Molecules in Protein Binding Sites from Molecular Dynamics Simulations: The Impact of Ligand Binding on Hydration Networks.
Rudling et al. (2018)