› 6yac

Electron Microscopy
2.5Å resolution

Plant PSI-ferredoxin supercomplex

Released:
DOI: 10.2210/pdb6yac/pdb
PDB entry 6yac coloured by chain, front view.
PDB entry 6yac coloured by chain, side view.
PDB entry 6yac coloured by chain, top view.
Source organism: Pisum sativum
Primary publication:
The structure of a triple complex of plant photosystem I with ferredoxin and plastocyanin.
Caspy I, Borovikova-Sheinker A, Klaiman D, Shkolnisky Y, Nelson N
Nat Plants 6 1300-1305 (2020)
PMID: 33020607
Related structures: EMD-10746

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)
PDBe Complex ID:
PDB-CPX-101278 (preferred)
Entry contents:
17 distinct polypeptide molecules
Macromolecules (17 distinct):
Photosystem I P700 chlorophyll a apoprotein A1 Chain: A
Molecule details ›
Chain: A
Length: 743 amino acids
Theoretical weight: 82.57 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: A0A0F6NFW5 (Residues: 16-758; Coverage: 98%)
Gene name: psaA
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I P700 chlorophyll a apoprotein A2 Chain: B
Molecule details ›
Chain: B
Length: 733 amino acids
Theoretical weight: 82.38 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: A0A0F6NGI2 (Residues: 2-734; Coverage: 100%)
Gene name: psaB
Sequence domains: Photosystem I psaA/psaB protein
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
Photosystem I reaction center subunit II, chloroplastic Chain: D
Molecule details ›
Chain: D
Length: 143 amino acids
Theoretical weight: 16.04 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: E1C9K8 (Residues: 1-138; Coverage: 100%)
Sequence domains: PsaD
Photosystem I reaction center subunit IV Chain: E
Molecule details ›
Chain: E
Length: 66 amino acids
Theoretical weight: 7.48 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: E1C9K6 (Residues: 1-64; Coverage: 100%)
Sequence domains: Photosystem I reaction centre subunit IV / PsaE
Photosystem I reaction center subunit III Chain: F
Molecule details ›
Chain: F
Length: 154 amino acids
Theoretical weight: 17.14 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: A0A0M3KL12 (Residues: 1-154; Coverage: 100%)
Sequence domains: Photosystem I reaction centre subunit III
PsaG Chain: G
Molecule details ›
Chain: G
Length: 97 amino acids
Theoretical weight: 10.68 KDa
Source organism: Pisum sativum
Photosystem I reaction center subunit VI Chain: H
Molecule details ›
Chain: H
Length: 88 amino acids
Theoretical weight: 9.49 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: A0A0M3KL10 (Residues: 2-87; Coverage: 96%)
Sequence domains: Photosystem I reaction centre subunit VI
Photosystem I reaction center subunit VIII Chain: I
Molecule details ›
Chain: I
Length: 31 amino acids
Theoretical weight: 3.41 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: P17227 (Residues: 2-32; Coverage: 78%)
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: 4.77 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: D5MAL3 (Residues: 1-42; Coverage: 100%)
Gene name: psaJ
Sequence domains: Photosystem I reaction centre subunit IX / PsaJ
PSI-K Chain: K
Molecule details ›
Chain: K
Length: 81 amino acids
Theoretical weight: 8.14 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: E1C9L3 (Residues: 2-82; Coverage: 96%)
Sequence domains: Photosystem I psaG / psaK
PSI subunit V Chain: L
Molecule details ›
Chain: L
Length: 157 amino acids
Theoretical weight: 16.56 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: E1C9L1 (Residues: 4-160; Coverage: 98%)
Sequence domains: Photosystem I reaction centre subunit XI
Lhca1 Chain: 1
Molecule details ›
Chain: 1
Length: 193 amino acids
Theoretical weight: 21.34 KDa
Source organism: Pisum sativum
Chlorophyll a-b binding protein, chloroplastic Chain: 2
Molecule details ›
Chain: 2
Length: 208 amino acids
Theoretical weight: 22.85 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: Q41038 (Residues: 58-265; Coverage: 77%)
Gene names: KIW84_045602, lhaB
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein 3, chloroplastic Chain: 3
Molecule details ›
Chain: 3
Length: 221 amino acids
Theoretical weight: 24.14 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: Q32904 (Residues: 55-275; Coverage: 80%)
Gene name: lhca3
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein P4, chloroplastic Chain: 4
Molecule details ›
Chain: 4
Length: 198 amino acids
Theoretical weight: 21.99 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: Q9SQL2 (Residues: 52-249; Coverage: 79%)
Gene name: lhcA-P4
Sequence domains: Chlorophyll A-B binding protein
Ferredoxin-1, chloroplastic Chain: N
Molecule details ›
Chain: N
Length: 97 amino acids
Theoretical weight: 10.36 KDa
Source organism: Pisum sativum
UniProt:
  • Canonical: P09911 (Residues: 53-149; Coverage: 65%)
Gene names: FED1, PETF
Sequence domains: 2Fe-2S iron-sulfur cluster binding domain

Ligands and Environments

15 bound ligands:
Ligand CL0 1 x CL0
Ligand CLA 141 x CLA
Ligand PQN 2 x PQN
Ligand SF4 3 x SF4
Ligand BCR 27 x BCR
Ligand LHG 8 x LHG
Ligand LMT 6 x LMT
Ligand LMG 19 x LMG
Ligand CA 2 x CA
Ligand DGD 8 x DGD
Ligand LUT 7 x LUT
Ligand CHL 15 x CHL
Ligand XAT 2 x XAT
Ligand C7Z 1 x C7Z
Ligand FES 1 x FES
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.5Å
Relevant EMDB volumes: EMD-10746

Quick links

Citations

3 review citations

New Insights into the Evolution of the Electron Transfer from Cytochrome f to Photosystem I in the Green and Red Branches of Photosynthetic Eukaryotes.
Castell et al. (2021)
2 more