› 3i4d

X-ray diffraction
2.01Å resolution

Photosynthetic reaction center from rhodobacter sphaeroides 2.4.1

Released:
DOI: 10.2210/pdb3i4d/pdb
PDB entry 3i4d coloured by chain, front view.
PDB entry 3i4d coloured by chain, side view.
PDB entry 3i4d coloured by chain, top view.
Source organism: Cereibacter sphaeroides
Entry authors: Fujii R, Adachi S, Roszak AW, Gardiner AT, Cogdell RJ, Isaacs NW, Koshihara S, Hashimoto H

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 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

15 bound ligands:
Ligand BCL 4 x BCL
Ligand BPH 2 x BPH
Ligand U10 2 x U10
Ligand UQ1 1 x UQ1
Ligand PO4 7 x PO4
Ligand DIO 1 x DIO
Ligand GOL 26 x GOL
Ligand HT3 1 x HT3
Ligand HTO 2 x HTO
Ligand LDA 21 x LDA
Ligand FE 1 x FE
Ligand SPO 1 x SPO
Ligand K 2 x K
Ligand CL 1 x CL
Ligand CDL 1 x CDL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW14A
Spacegroup: P3121
Unit cell:
a: 138.8Å b: 138.8Å c: 184.569Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.183 0.181 0.207

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