› 6k61

Electron Microscopy
2.37Å resolution

Cryo-EM structure of the tetrameric photosystem I from a heterocyst-forming cyanobacterium Anabaena sp. PCC7120

Released:
DOI: 10.2210/pdb6k61/pdb
PDB entry 6k61 coloured by chain, front view.
PDB entry 6k61 coloured by chain, side view.
PDB entry 6k61 coloured by chain, top view.
Source organism: Nostoc sp. PCC 7120 = FACHB-418
Primary publication:
Structural and functional insights into the tetrameric photosystem I from heterocyst-forming cyanobacteria.
Zheng L, Li Y, Li X, Zhong Q, Li N, Zhang K, Zhang Y, Chu H, Ma C, Li G, Zhao J, Gao N
Nat Plants 5 1087-1097 (2019)
PMID: 31595062
Related structures: EMD-9918

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 24-mer (preferred)
PDBe Complex ID:
PDB-CPX-141244 (preferred)
Entry contents:
12 distinct polypeptide molecules
Macromolecules (12 distinct):
Photosystem I P700 chlorophyll a apoprotein A1 Chains: A, a
Molecule details ›
Chains: A, a
Length: 752 amino acids
Theoretical weight: 83.29 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58576 (Residues: 1-752; Coverage: 100%)
Gene names: alr5154, psaA
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I 4.8 kDa protein Chains: X, x
Molecule details ›
Chains: X, x
Length: 44 amino acids
Theoretical weight: 4.87 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58566 (Residues: 1-44; Coverage: 100%)
Gene names: asr1283, psaX
Sequence domains: PsaX family
Photosystem I P700 chlorophyll a apoprotein A2 1 Chains: B, b
Molecule details ›
Chains: B, b
Length: 741 amino acids
Theoretical weight: 83.46 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58565 (Residues: 1-741; Coverage: 100%)
Gene names: alr5155, psaB1
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I iron-sulfur center Chains: C, c
Molecule details ›
Chains: C, c
Length: 81 amino acids
Theoretical weight: 8.83 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P0A410 (Residues: 1-81; Coverage: 100%)
Gene names: asr3463, psaC
Sequence domains: 4Fe-4S dicluster domain
Photosystem I reaction center subunit II Chains: D, d
Molecule details ›
Chains: D, d
Length: 139 amino acids
Theoretical weight: 15.18 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58573 (Residues: 1-139; Coverage: 100%)
Gene names: all0329, psaD
Sequence domains: PsaD
Photosystem I reaction center subunit IV Chains: E, e
Molecule details ›
Chains: E, e
Length: 70 amino acids
Theoretical weight: 7.9 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58575 (Residues: 1-70; Coverage: 100%)
Gene names: asr4319, psaE
Sequence domains: Photosystem I reaction centre subunit IV / PsaE
Photosystem I reaction center subunit III Chains: F, f
Molecule details ›
Chains: F, f
Length: 164 amino acids
Theoretical weight: 17.85 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58564 (Residues: 1-164; Coverage: 100%)
Gene names: all0109, psaF
Sequence domains: Photosystem I reaction centre subunit III
Photosystem I reaction center subunit IX Chains: J, j
Molecule details ›
Chains: J, j
Length: 49 amino acids
Theoretical weight: 5.5 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58568 (Residues: 1-49; Coverage: 100%)
Gene names: asl0108, psaJ
Sequence domains: Photosystem I reaction centre subunit IX / PsaJ
Photosystem I reaction center subunit PsaK 1 Chains: K, k
Molecule details ›
Chains: K, k
Length: 86 amino acids
Theoretical weight: 8.85 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58583 (Residues: 1-86; Coverage: 100%)
Gene names: asr4775, psaK1
Sequence domains: Photosystem I psaG / psaK
Photosystem I reaction center subunit VIII Chains: I, i
Molecule details ›
Chains: I, i
Length: 46 amino acids
Theoretical weight: 5.07 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58560 (Residues: 1-46; Coverage: 100%)
Gene names: asl3849, psaI
Sequence domains: Photosystem I reaction centre subunit VIII
Photosystem I reaction center subunit XI Chains: L, l
Molecule details ›
Chains: L, l
Length: 172 amino acids
Theoretical weight: 18.13 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: P58577 (Residues: 1-172; Coverage: 100%)
Gene names: all0107, psaL
Sequence domains: Photosystem I reaction centre subunit XI
Photosystem I reaction center subunit XII Chains: M, m
Molecule details ›
Chains: M, m
Length: 32 amino acids
Theoretical weight: 3.54 KDa
Source organism: Nostoc sp. PCC 7120 = FACHB-418
UniProt:
  • Canonical: Q8YNB0 (Residues: 1-32; Coverage: 100%)
Gene names: asr4657, psaM
Sequence domains: Photosystem I protein M (PsaM)

Ligands and Environments

8 bound ligands:
Ligand CL0 2 x CL0
Ligand CLA 188 x CLA
Ligand PQN 4 x PQN
Ligand SF4 6 x SF4
Ligand BCR 46 x BCR
Ligand LHG 6 x LHG
Ligand SQD 4 x SQD
Ligand LMG 3 x LMG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.37Å
Relevant EMDB volumes: EMD-9918

Quick links

Citations

2 review citations

Opportunities and challenges for assigning cofactors in cryo-EM density maps of chlorophyll-containing proteins.
Gisriel et al. (2020)
1 more

5 mentions without citation

Diversity Among Cyanobacterial Photosystem I Oligomers.
Chen et al. (2021)
4 more