› 2o01

X-ray diffraction
3.4Å resolution

The Structure of a plant photosystem I supercomplex at 3.4 Angstrom resolution

Released:
DOI: 10.2210/pdb2o01/pdb
PDB entry 2o01 coloured by chain, front view.
PDB entry 2o01 coloured by chain, side view.
PDB entry 2o01 coloured by chain, top view.
Source organisms:
Primary publication:
The structure of a plant photosystem I supercomplex at 3.4 A resolution.
Amunts A, Drory O, Nelson N
Nature 447 58-63 (2007)
PMID: 17476261

Function and Biology Details

Reaction catalysed: 
Reduced plastocyanin + oxidized ferredoxin + light = oxidized plastocyanin + reduced ferredoxin
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero heptadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138625 (preferred)
Entry contents:
17 distinct polypeptide molecules
Macromolecules (17 distinct):
Photosystem I P700 chlorophyll a apoprotein A1 Chain: A
Molecule details ›
Chain: A
Length: 754 amino acids
Theoretical weight: 83.67 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: P05310 (Residues: 5-758; Coverage: 100%)
Gene names: psaA, psaA1
Sequence domains: Photosystem I psaA/psaB protein
Structure domains: Photosystem I PsaA/PsaB
Photosystem I P700 chlorophyll a apoprotein A2 Chain: B
Molecule details ›
Chain: B
Length: 732 amino acids
Theoretical weight: 82.23 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: P05311 (Residues: 2-733; Coverage: 100%)
Gene names: psaA2, psaB
Sequence domains: Photosystem I psaA/psaB protein
Structure domains: Photosystem I PsaA/PsaB
Photosystem I iron-sulfur center Chain: C
Molecule details ›
Chain: C
Length: 80 amino acids
Theoretical weight: 8.86 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: P10793 (Residues: 2-81; Coverage: 99%)
Gene names: frxA, psaC
Sequence domains: 4Fe-4S dicluster domain
Structure domains: Alpha-Beta Plaits
Photosystem I reaction center subunit II, chloroplastic Chain: D
Molecule details ›
Chain: D
Length: 138 amino acids
Theoretical weight: 15.55 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P12353 (Residues: 75-212; Coverage: 65%)
Gene name: psaD
Sequence domains: PsaD
Structure domains: Photosystem I PsaD, reaction center subunit II
Photosystem I reaction center subunit IV A, chloroplastic Chain: E
Molecule details ›
Chain: E
Length: 62 amino acids
Theoretical weight: 7.13 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9S831 (Residues: 81-142; Coverage: 43%)
Gene names: At4g28750, F16A16.140, PSAE1
Sequence domains: Photosystem I reaction centre subunit IV / PsaE
Structure domains: SH3 type barrels.
Photosystem I reaction center subunit III, chloroplastic Chain: F
Molecule details ›
Chain: F
Length: 154 amino acids
Theoretical weight: 17.3 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P12355 (Residues: 78-231; Coverage: 67%)
Gene name: PSAF
Sequence domains: Photosystem I reaction centre subunit III
Structure domains: Photosystem I PsaF, reaction centre subunit III
Photosystem I reaction center subunit V, chloroplastic Chain: G
Molecule details ›
Chain: G
Length: 95 amino acids
Theoretical weight: 10.52 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P12357 (Residues: 73-167; Coverage: 57%)
Gene name: PSAG
Sequence domains: Photosystem I psaG / psaK
Structure domains: Chlorophyll a-b binding protein like
Photosystem I reaction center subunit VI, chloroplastic Chain: H
Molecule details ›
Chain: H
Length: 75 amino acids
Theoretical weight: 8.14 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P22179 (Residues: 70-144; Coverage: 52%)
Gene name: PSAH
Sequence domains: Photosystem I reaction centre subunit VI
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Photosystem I reaction center subunit VIII Chain: I
Molecule details ›
Chain: I
Length: 30 amino acids
Theoretical weight: 3.27 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: P17227 (Residues: 1-30; Coverage: 75%)
Gene name: psaI
Sequence domains: Photosystem I reaction centre subunit VIII
Photosystem I reaction center subunit IX Chain: J
Molecule details ›
Chain: J
Length: 42 amino acids
Theoretical weight: 4.85 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P17230 (Residues: 1-42; Coverage: 96%)
Gene name: psaJ
Sequence domains: Photosystem I reaction centre subunit IX / PsaJ
Structure domains: Single helix bin
Photosystem I reaction center subunit psaK, chloroplast Chain: K
Molecule details ›
Chain: K
Length: 38 amino acids
Theoretical weight: 3.25 KDa
Source organism: Arabidopsis thaliana
Photosystem I reaction center subunit XI, chloroplastic Chain: L
Molecule details ›
Chain: L
Length: 164 amino acids
Theoretical weight: 17.48 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: Q41385 (Residues: 53-216; Coverage: 76%)
Gene name: PSAL
Sequence domains: Photosystem I reaction centre subunit XI
Structure domains: Photosystem I PsaL, reaction centre subunit XI
Photosystem I-N subunit Chain: N
Molecule details ›
Chain: N
Length: 85 amino acids
Theoretical weight: 9.77 KDa
Source organism: Phaseolus vulgaris
UniProt:
  • Canonical: Q84U30 (Residues: 86-170; Coverage: 50%)
Gene names: PHAVU_002G269400g, PSI-N
Sequence domains: Photosystem I reaction centre subunit N (PSAN or PSI-N)
Structure domains: Single helix bin
Chlorophyll a-b binding protein 6, chloroplastic Chain: 1
Molecule details ›
Chain: 1
Length: 187 amino acids
Theoretical weight: 20.42 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q01667 (Residues: 49-235; Coverage: 78%)
Gene names: At3g54890, CAB6, F28P10.130, LHCA1
Sequence domains: Chlorophyll A-B binding protein
Structure domains: Chlorophyll a/b binding protein domain
Chlorophyll a-b binding protein, chloroplastic Chain: 2
Molecule details ›
Chain: 2
Length: 186 amino acids
Theoretical weight: 20.58 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: Q41038 (Residues: 74-259; Coverage: 69%)
Gene names: KIW84_045602, lhaB
Sequence domains: Chlorophyll A-B binding protein
Structure domains: Chlorophyll a/b binding protein domain
Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic Chain: 3
Molecule details ›
Chain: 3
Length: 165 amino acids
Theoretical weight: 17.93 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SY97 (Residues: 95-259; Coverage: 60%)
Gene names: At1g61520, LHCA3, T25B24.12
Sequence domains: Chlorophyll A-B binding protein
Structure domains: Chlorophyll a/b binding protein domain
Chlorophyll a-b binding protein P4, chloroplastic Chain: 4
Molecule details ›
Chain: 4
Length: 165 amino acids
Theoretical weight: 18.56 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: Q9SQL2 (Residues: 85-249; Coverage: 66%)
Gene name: lhcA-P4
Sequence domains: Chlorophyll A-B binding protein
Structure domains: Chlorophyll a/b binding protein domain

Ligands and Environments

4 bound ligands:
Ligand CLA 168 x CLA
Ligand PQN 2 x PQN
Ligand BCR 5 x BCR
Ligand SF4 3 x SF4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P21
Unit cell:
a: 120.054Å b: 188.784Å c: 127.518Å
α: 90° β: 95.19° γ: 90°
R-values:
R R work R free
0.351 0.348 0.409

Quick links

Citations

55 review citations

Natural strategies for photosynthetic light harvesting.
Croce et al. (2014)
54 more

11 mentions without citation

New direct dynamic models of protein interactions coupled to photosynthetic electron transport reactions.
Riznichenko et al. (2010)
10 more