› 7wfd

Electron Microscopy
3.25Å resolution

Left PSI in the cyclic electron transport supercomplex NDH-PSI from Arabidopsis

Released:
DOI: 10.2210/pdb7wfd/pdb
PDB entry 7wfd coloured by chain, front view.
PDB entry 7wfd coloured by chain, side view.
PDB entry 7wfd coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Supramolecular assembly of chloroplast NADH dehydrogenase-like complex with photosystem I from Arabidopsis thaliana.
Su X, Cao D, Pan X, Shi L, Liu Z, Dall'Osto L, Bassi R, Zhang X, Li M
Mol Plant 15 454-467 (2022)
PMID: 35123031
Related structures: EMD-32462

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 hexadecamer (preferred)
PDBe Complex ID:
PDB-CPX-151023 (preferred)
Entry contents:
16 distinct polypeptide molecules
Macromolecules (16 distinct):
Photosystem I P700 chlorophyll a apoprotein A1 Chain: AA
Molecule details ›
Chain: AA
Length: 750 amino acids
Theoretical weight: 83.32 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P56766 (Residues: 1-750; Coverage: 100%)
Gene names: AtCg00350, psaA
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I P700 chlorophyll a apoprotein A2 Chain: AB
Molecule details ›
Chain: AB
Length: 734 amino acids
Theoretical weight: 82.56 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P56767 (Residues: 1-734; Coverage: 100%)
Gene names: AtCg00340, psaB
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I iron-sulfur center Chain: AC
Molecule details ›
Chain: AC
Length: 81 amino acids
Theoretical weight: 9.05 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P62090 (Residues: 1-81; Coverage: 100%)
Gene names: AtCg01060, frxA, psaC
Sequence domains: 4Fe-4S dicluster domain
Photosystem I reaction center subunit II-2, chloroplastic Chain: AD
Molecule details ›
Chain: AD
Length: 204 amino acids
Theoretical weight: 22.34 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SA56 (Residues: 1-204; Coverage: 100%)
Gene names: At1g03130, F10O3_4, PSAD2
Sequence domains: PsaD
Photosystem I reaction center subunit IV A, chloroplastic Chain: AE
Molecule details ›
Chain: AE
Length: 143 amino acids
Theoretical weight: 14.98 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9S831 (Residues: 1-143; Coverage: 100%)
Gene names: At4g28750, F16A16.140, PSAE1
Sequence domains: Photosystem I reaction centre subunit IV / PsaE
Photosystem I reaction center subunit III, chloroplastic Chain: AF
Molecule details ›
Chain: AF
Length: 221 amino acids
Theoretical weight: 24.2 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SHE8 (Residues: 1-221; Coverage: 100%)
Gene names: At1g31330, PSAF, T19E23.12
Sequence domains: Photosystem I reaction centre subunit III
Photosystem I reaction center subunit V, chloroplastic Chain: AG
Molecule details ›
Chain: AG
Length: 160 amino acids
Theoretical weight: 17.1 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9S7N7 (Residues: 1-160; Coverage: 100%)
Gene names: At1g55670, F20N2.21, F20N2.33, F20N2_3, PSAG
Sequence domains: Photosystem I psaG / psaK
Photosystem I reaction center subunit VI-2, chloroplastic Chain: AH
Molecule details ›
Chain: AH
Length: 145 amino acids
Theoretical weight: 15.29 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SUI6 (Residues: 1-145; Coverage: 100%)
Gene names: At1g52230, F9I5.11, PSAH2
Sequence domains: Photosystem I reaction centre subunit VI
Photosystem I reaction center subunit VIII Chain: AI
Molecule details ›
Chain: AI
Length: 37 amino acids
Theoretical weight: 4.14 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P56768 (Residues: 1-37; Coverage: 100%)
Gene names: AtCg00510, psaI
Sequence domains: Photosystem I reaction centre subunit VIII
Photosystem I reaction center subunit IX Chain: AJ
Molecule details ›
Chain: AJ
Length: 44 amino acids
Theoretical weight: 5.01 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P56769 (Residues: 1-44; Coverage: 100%)
Gene names: AtCg00630, psaJ
Sequence domains: Photosystem I reaction centre subunit IX / PsaJ
Photosystem I reaction center subunit psaK, chloroplastic Chain: AK
Molecule details ›
Chain: AK
Length: 130 amino acids
Theoretical weight: 13.22 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SUI5 (Residues: 1-130; Coverage: 100%)
Gene names: At1g30380, PSAK, T4K22.2
Sequence domains: Photosystem I psaG / psaK
Photosystem I reaction center subunit XI, chloroplastic Chain: AL
Molecule details ›
Chain: AL
Length: 219 amino acids
Theoretical weight: 23.07 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SUI4 (Residues: 1-219; Coverage: 100%)
Gene names: At4g12800, PSAL, T20K18.150
Sequence domains: Photosystem I reaction centre subunit XI
Chlorophyll a-b binding protein 6, chloroplastic Chain: A1
Molecule details ›
Chain: A1
Length: 241 amino acids
Theoretical weight: 26.02 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q01667 (Residues: 1-241; Coverage: 100%)
Gene names: At3g54890, CAB6, F28P10.130, LHCA1
Sequence domains: Chlorophyll A-B binding protein
Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic Chain: A3
Molecule details ›
Chain: A3
Length: 273 amino acids
Theoretical weight: 29.21 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SY97 (Residues: 1-273; Coverage: 100%)
Gene names: At1g61520, LHCA3, T25B24.12
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein 4, chloroplastic Chain: A4
Molecule details ›
Chain: A4
Length: 251 amino acids
Theoretical weight: 27.76 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P27521 (Residues: 1-251; Coverage: 100%)
Gene names: At3g47470, CAB4, F1P2.20, LHCA4
Sequence domains: Chlorophyll A-B binding protein
Photosystem I chlorophyll a/b-binding protein 6, chloroplastic Chain: A6
Molecule details ›
Chain: A6
Length: 270 amino acids
Theoretical weight: 29.97 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q8LCQ4 (Residues: 1-270; Coverage: 100%)
Gene names: At1g19150, LHCA6, T29M8.2
Sequence domains: Chlorophyll A-B binding protein

Ligands and Environments

11 bound ligands:
Ligand CLA 143 x CLA
Ligand PQN 2 x PQN
Ligand LHG 8 x LHG
Ligand BCR 26 x BCR
Ligand SF4 3 x SF4
Ligand LMU 5 x LMU
Ligand DGD 1 x DGD
Ligand LUT 5 x LUT
Ligand LMG 3 x LMG
Ligand CHL 11 x CHL
Ligand XAT 4 x XAT
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.25Å
Relevant EMDB volumes: EMD-32462

Quick links

Citations

2 review citations

Cyanobacterial NDH-1 Complexes.
Hualing M. (2022)
1 more