› 8htu

Electron Microscopy
2.87Å resolution

Cryo-EM structure of PpPSI-L

Released:
DOI: 10.2210/pdb8htu/pdb
PDB entry 8htu coloured by chain, front view.
PDB entry 8htu coloured by chain, side view.
PDB entry 8htu coloured by chain, top view.
Source organism: Physcomitrium patens
Primary publication:
Structural insights into the assembly and energy transfer of the Lhcb9-dependent photosystem I from moss Physcomitrium patens.
Sun H, Shang H, Pan X, Li M
Nat Plants (2023)
PMID: 37474782
Related structures: EMD-35018

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 26-mer (preferred)
PDBe Complex ID:
PDB-CPX-496704 (preferred)
Entry contents:
20 distinct polypeptide molecules
Macromolecules (20 distinct):
Chlorophyll a-b binding protein, chloroplastic Chains: U, V, W
Molecule details ›
Chains: U, V, W
Length: 265 amino acids
Theoretical weight: 28.4 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A9RT62 (Residues: 1-265; Coverage: 100%)
Gene name: PHYPA_025699
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein, chloroplastic Chains: 1, 5
Molecule details ›
Chains: 1, 5
Length: 245 amino acids
Theoretical weight: 25.93 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1JLZ3 (Residues: 1-245; Coverage: 100%)
Gene name: PHYPA_017397
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein, chloroplastic Chains: 2, 6
Molecule details ›
Chains: 2, 6
Length: 273 amino acids
Theoretical weight: 29.04 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A9TJ06 (Residues: 1-273; Coverage: 100%)
Gene name: PHYPA_025494
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein, chloroplastic Chains: 3, 7
Molecule details ›
Chains: 3, 7
Length: 323 amino acids
Theoretical weight: 34.67 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1IB10 (Residues: 1-323; Coverage: 100%)
Gene name: PHYPA_031029
Sequence domains: Chlorophyll A-B binding protein
Chlorophyll a-b binding protein, chloroplastic Chains: 4, 8
Molecule details ›
Chains: 4, 8
Length: 270 amino acids
Theoretical weight: 28.82 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1K0E4 (Residues: 1-270; Coverage: 100%)
Gene name: PHYPA_014361
Sequence domains: Chlorophyll A-B binding protein
Photosystem I P700 chlorophyll a apoprotein A1 Chain: A
Molecule details ›
Chain: A
Length: 750 amino acids
Theoretical weight: 83.23 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: Q8MFA3 (Residues: 1-750; Coverage: 100%)
Gene name: psaA
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I P700 chlorophyll a apoprotein A2 Chain: B
Molecule details ›
Chain: B
Length: 734 amino acids
Theoretical weight: 82.45 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: Q8MFA2 (Residues: 1-734; Coverage: 100%)
Gene name: psaB
Sequence domains: Photosystem I psaA/psaB protein
Photosystem I iron-sulfur center Chain: C
Molecule details ›
Chain: C
Length: 81 amino acids
Theoretical weight: 8.78 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: Q6YXQ2 (Residues: 1-81; Coverage: 100%)
Gene name: psaC
Sequence domains: 4Fe-4S dicluster domain
Photosystem I reaction center subunit II, chloroplastic Chain: D
Molecule details ›
Chain: D
Length: 210 amino acids
Theoretical weight: 22.18 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A9REG3 (Residues: 1-210; Coverage: 100%)
Gene name: PHYPA_021401
Sequence domains: PsaD
Photosystem I reaction center subunit IV, chloroplastic Chain: E
Molecule details ›
Chain: E
Length: 132 amino acids
Theoretical weight: 13.92 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1IHL7 (Residues: 1-132; Coverage: 100%)
Gene name: PHYPA_029370
Sequence domains: Photosystem I reaction centre subunit IV / PsaE
Photosystem I reaction center subunit III Chain: F
Molecule details ›
Chain: F
Length: 246 amino acids
Theoretical weight: 26.11 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1IN36 (Residues: 1-246; Coverage: 100%)
Gene name: PHYPA_026994
Sequence domains: Photosystem I reaction centre subunit III
Photosystem I reaction center subunit V, chloroplastic Chain: G
Molecule details ›
Chain: G
Length: 155 amino acids
Theoretical weight: 16.23 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1JC42 (Residues: 1-155; Coverage: 100%)
Gene name: PHYPA_019380
Sequence domains: Photosystem I psaG / psaK
Photosystem I reaction center subunit VI, chloroplastic Chain: H
Molecule details ›
Chain: H
Length: 139 amino acids
Theoretical weight: 14.51 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1JDR4 (Residues: 1-139; Coverage: 100%)
Gene name: PHYPA_019944
Sequence domains: Photosystem I reaction centre subunit VI
Photosystem I reaction center subunit VIII Chain: I
Molecule details ›
Chain: I
Length: 36 amino acids
Theoretical weight: 4.02 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: Q6YXR3 (Residues: 1-36; Coverage: 100%)
Gene names: Pp3P_310V3, psaI
Sequence domains: Photosystem I reaction centre subunit VIII
Photosystem I reaction center subunit IX Chain: J
Molecule details ›
Chain: J
Length: 41 amino acids
Theoretical weight: 4.6 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: Q6YXM2 (Residues: 1-41; Coverage: 100%)
Gene name: psaJ
Sequence domains: Photosystem I reaction centre subunit IX / PsaJ
PSI-K Chain: K
Molecule details ›
Chain: K
Length: 132 amino acids
Theoretical weight: 13.28 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1KU02 (Residues: 1-132; Coverage: 100%)
Gene name: PHYPA_004241
Sequence domains: Photosystem I psaG / psaK
PSI subunit V Chain: L
Molecule details ›
Chain: L
Length: 223 amino acids
Theoretical weight: 23.53 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A7I4A0Q6 (Residues: 1-223; Coverage: 100%)
Sequence domains: Photosystem I reaction centre subunit XI
Photosystem I reaction center subunit XII Chain: M
Molecule details ›
Chain: M
Length: 32 amino acids
Theoretical weight: 3.41 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: Q6YXK4 (Residues: 1-32; Coverage: 100%)
Gene names: Pp3P_710V3, psaM
Sequence domains: Photosystem I protein M (PsaM)
Photosystem I subunit O Chain: O
Molecule details ›
Chain: O
Length: 143 amino acids
Theoretical weight: 15.39 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A7I4AUU1 (Residues: 11-153; Coverage: 100%)
Sequence domains: PsaO transmembrane domain
Chlorophyll a-b binding protein, chloroplastic Chain: 9
Molecule details ›
Chain: 9
Length: 311 amino acids
Theoretical weight: 33.18 KDa
Source organism: Physcomitrium patens
UniProt:
  • Canonical: A0A2K1KKR9 (Residues: 1-311; Coverage: 100%)
Gene name: PHYPA_008049
Sequence domains: Chlorophyll A-B binding protein

Ligands and Environments

12 bound ligands:
Ligand CHL 49 x CHL
Ligand CLA 221 x CLA
Ligand LUT 17 x LUT
Ligand XAT 11 x XAT
Ligand NEX 4 x NEX
Ligand LHG 15 x LHG
Ligand BCR 33 x BCR
Ligand LMG 6 x LMG
Ligand PQN 2 x PQN
Ligand SF4 3 x SF4
Ligand LMT 4 x LMT
Ligand DGD 1 x DGD
1 modified residue:
Ligand TPO 3 x TPO

Experiments and Validation Details

Entry percentile scores
Resolution: 2.87Å
Relevant EMDB volumes: EMD-35018

Quick links

Citations

2 citation in other articles

Architecture of symbiotic dinoflagellate photosystem I-light-harvesting supercomplex in Symbiodinium.
Zhao et al. (2024)
1 more

1 mention without citation

Dynamic Regulation of the Light-Harvesting System through State Transitions in Land Plants and Green Algae.
Shang et al. (2023)