› 2e74

X-ray diffraction
3Å resolution

Crystal Structure of the Cytochrome b6f Complex from M.laminosus

Released:
DOI: 10.2210/pdb2e74/pdb
PDB entry 2e74 coloured by chain, front view.
PDB entry 2e74 coloured by chain, side view.
PDB entry 2e74 coloured by chain, top view.
Source organism: Mastigocladus laminosus
Primary publication:
Structure of the cytochrome b6f complex: quinone analogue inhibitors as ligands of heme cn.
Yamashita E, Zhang H, Cramer WA
J Mol Biol 370 39-52 (2007)
PMID: 17498743

Function and Biology Details

Reaction catalysed: 
Plastoquinol + 2 oxidized plastocyanin + 2 H(+)(Side 1) = plastoquinone + 2 reduced plastocyanin + 4 H(+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero hexadecamer (preferred)
PDBe Complex ID:
PDB-CPX-160745 (preferred)
Entry contents:
8 distinct polypeptide molecules
Macromolecules (8 distinct):
Cytochrome b6 Chain: A
Molecule details ›
Chain: A
Length: 215 amino acids
Theoretical weight: 24.25 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83791 (Residues: 1-215; Coverage: 100%)
Gene name: petB
Sequence domains: Cytochrome b/b6/petB
Structure domains: Cytochrome Bc1 Complex; Chain C
Cytochrome b6-f complex subunit 4 Chain: B
Molecule details ›
Chain: B
Length: 160 amino acids
Theoretical weight: 17.69 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83792 (Residues: 1-160; Coverage: 100%)
Gene name: petD
Sequence domains: Cytochrome b(C-terminal)/b6/petD
Structure domains:
Cytochrome f Chain: C
Molecule details ›
Chain: C
Length: 289 amino acids
Theoretical weight: 31.66 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83793 (Residues: 45-333; Coverage: 98%)
Gene name: petA
Sequence domains:
Structure domains:
Cytochrome b6-f complex iron-sulfur subunit Chain: D
Molecule details ›
Chain: D
Length: 179 amino acids
Theoretical weight: 19.42 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83794 (Residues: 1-179; Coverage: 100%)
Gene name: petC
Sequence domains: Rieske [2Fe-2S] domain
Structure domains:
Cytochrome b6-f complex subunit 6 Chain: E
Molecule details ›
Chain: E
Length: 32 amino acids
Theoretical weight: 3.5 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83795 (Residues: 1-32; Coverage: 100%)
Gene name: petL
Cytochrome b6-f complex subunit 7 Chain: F
Molecule details ›
Chain: F
Length: 35 amino acids
Theoretical weight: 3.84 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83796 (Residues: 1-35; Coverage: 100%)
Gene name: petM
Sequence domains: PetM family of cytochrome b6f complex subunit 7
Cytochrome b6-f complex subunit 5 Chain: G
Molecule details ›
Chain: G
Length: 37 amino acids
Theoretical weight: 4.02 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83797 (Residues: 1-37; Coverage: 100%)
Gene name: petG
Sequence domains: Cytochrome B6-F complex subunit 5
Cytochrome b6-f complex subunit 8 Chain: H
Molecule details ›
Chain: H
Length: 29 amino acids
Theoretical weight: 3.28 KDa
Source organism: Mastigocladus laminosus
UniProt:
  • Canonical: P83798 (Residues: 1-29; Coverage: 100%)
Gene name: petN
Sequence domains: PetN

Ligands and Environments

8 bound ligands:
Ligand CD 2 x CD
Ligand HEM 4 x HEM
Ligand UMQ 4 x UMQ
Ligand CLA 1 x CLA
Ligand OPC 2 x OPC
Ligand FES 1 x FES
Ligand SQD 1 x SQD
Ligand BCR 1 x BCR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P6122
Unit cell:
a: 158.343Å b: 158.343Å c: 361.094Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.225 0.222 0.268

Quick links

Citations

11 review citations

Metalloproteins containing cytochrome, iron-sulfur, or copper redox centers.
Liu et al. (2014)
10 more

15 mentions without citation

An expanding universe of small proteins.
Hobbs et al. (2011)
14 more