5y5s

X-ray diffraction
1.9Å resolution

Structure of photosynthetic LH1-RC super-complex at 1.9 angstrom resolution

Released:
Source organism: Thermochromatium tepidum
Primary publication:
Structure of photosynthetic LH1-RC supercomplex at 1.9 Å resolution.
Nature 556 209-213 (2018)
PMID: 29618814

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 36-mer (preferred)
PDBe Complex ID:
PDB-CPX-108558 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
Photosynthetic reaction center cytochrome c subunit Chain: C
Molecule details ›
Chain: C
Length: 404 amino acids
Theoretical weight: 43.18 KDa
Source organism: Thermochromatium tepidum
UniProt:
  • Canonical: D2Z0P5 (Residues: 1-404; Coverage: 100%)
Gene name: pufC
Sequence domains: Photosynthetic reaction centre cytochrome C subunit
Structure domains: Photosynthetic Reaction Center, subunit C, domain 2
Reaction center protein L chain Chain: L
Molecule details ›
Chain: L
Length: 281 amino acids
Theoretical weight: 31.52 KDa
Source organism: Thermochromatium tepidum
UniProt:
  • Canonical: D2Z0P3 (Residues: 1-281; 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: 325 amino acids
Theoretical weight: 36.61 KDa
Source organism: Thermochromatium tepidum
UniProt:
  • Canonical: A8ASG6 (Residues: 1-325; Coverage: 100%)
Gene name: pufM
Sequence domains: Photosynthetic reaction centre protein
Structure domains: Photosystem II protein D1-like
Photosynthetic reaction center H subunit Chain: H
Molecule details ›
Chain: H
Length: 259 amino acids
Theoretical weight: 28.21 KDa
Source organism: Thermochromatium tepidum
UniProt:
  • Canonical: D2Z0P9 (Residues: 1-259; Coverage: 100%)
Gene name: puhA
Sequence domains:
Structure domains:
Antenna complex alpha/beta subunit domain-containing protein Chains: 1, 3, 5, 7, 9, A, D, F, I, K, O, Q, S, U, W, Y
Molecule details ›
Chains: 1, 3, 5, 7, 9, A, D, F, I, K, O, Q, S, U, W, Y
Length: 61 amino acids
Theoretical weight: 7.03 KDa
Source organism: Thermochromatium tepidum
UniProt:
  • Canonical: D2Z0P2 (Residues: 1-61; Coverage: 100%)
Gene name: pufA
Sequence domains: Antenna complex alpha/beta subunit
Structure domains: Light-harvesting complex
Antenna complex alpha/beta subunit domain-containing protein Chains: 0, 2, 4, 6, 8, B, E, G, J, N, P, R, T, V, X, Z
Molecule details ›
Chains: 0, 2, 4, 6, 8, B, E, G, J, N, P, R, T, V, X, Z
Length: 47 amino acids
Theoretical weight: 5.53 KDa
Source organism: Thermochromatium tepidum
UniProt:
  • Canonical: D2Z0P1 (Residues: 1-47; Coverage: 100%)
Gene name: pufB
Sequence domains: Antenna complex alpha/beta subunit
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces

Ligands and Environments

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: C2
Unit cell:
a: 145.28Å b: 143.81Å c: 210.28Å
α: 90° β: 90.74° γ: 90°
R-values:
R R work R free
0.183 0.181 0.215