› 6l4u

Electron Microscopy
2.4Å resolution

Structure of the PSI-FCPI supercomplex from diatom

Released:
DOI: 10.2210/pdb6l4u/pdb
PDB entry 6l4u coloured by chain, front view.
PDB entry 6l4u coloured by chain, side view.
PDB entry 6l4u coloured by chain, top view.
Source organism: Chaetoceros gracilis
Primary publication:
Structure of photosystem I-light-harvesting supercomplex from a red-lineage diatom
Nagao R, Kato K, Ifuku K, Suzuki T, Kumazawa M, Uchiyama I, Kashino Y, Dohmae N, Akimoto S, Shen JR, Miyazaki N, Akita F
Nat Commun (2020)
Related structures: EMD-0835

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 28-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-166992 (preferred)
Entry contents:
28 distinct polypeptide molecules
Macromolecules (28 distinct):
Photosystem I P700 chlorophyll a apoprotein A1 Chain: A
Molecule details ›
Chain: A
Length: 751 amino acids
Theoretical weight: 83.65 KDa
Source organism: Chaetoceros gracilis
Photosystem I P700 chlorophyll a apoprotein A2 Chain: B
Molecule details ›
Chain: B
Length: 733 amino acids
Theoretical weight: 81.9 KDa
Source organism: Chaetoceros gracilis
Photosystem I iron-sulfur center Chain: C
Molecule details ›
Chain: C
Length: 81 amino acids
Theoretical weight: 8.81 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit II Chain: D
Molecule details ›
Chain: D
Length: 139 amino acids
Theoretical weight: 15.59 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit IV Chain: E
Molecule details ›
Chain: E
Length: 67 amino acids
Theoretical weight: 7.62 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit III Chain: F
Molecule details ›
Chain: F
Length: 185 amino acids
Theoretical weight: 20.45 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit VIII Chain: I
Molecule details ›
Chain: I
Length: 36 amino acids
Theoretical weight: 3.94 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit IX Chain: J
Molecule details ›
Chain: J
Length: 41 amino acids
Theoretical weight: 4.88 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit XI Chain: L
Molecule details ›
Chain: L
Length: 151 amino acids
Theoretical weight: 16.15 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit XII Chain: M
Molecule details ›
Chain: M
Length: 30 amino acids
Theoretical weight: 3.24 KDa
Source organism: Chaetoceros gracilis
Unknown protein 1 Chain: 1u
Molecule details ›
Chain: 1u
Length: 130 amino acids
Theoretical weight: 11.08 KDa
Source organism: Chaetoceros gracilis
Photosystem I reaction center subunit Psa28 Chain: 2u
Molecule details ›
Chain: 2u
Length: 121 amino acids
Theoretical weight: 12.9 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr15 Chain: 1
Molecule details ›
Chain: 1
Length: 227 amino acids
Theoretical weight: 24.88 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr8 Chain: 2
Molecule details ›
Chain: 2
Length: 205 amino acids
Theoretical weight: 21.73 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr2 Chain: 3
Molecule details ›
Chain: 3
Length: 200 amino acids
Theoretical weight: 21.56 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr9 Chain: 4
Molecule details ›
Chain: 4
Length: 215 amino acids
Theoretical weight: 22.93 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr11 Chain: 5
Molecule details ›
Chain: 5
Length: 266 amino acids
Theoretical weight: 29.51 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr12 Chain: 6
Molecule details ›
Chain: 6
Length: 208 amino acids
Theoretical weight: 22.36 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr10 Chain: 7
Molecule details ›
Chain: 7
Length: 296 amino acids
Theoretical weight: 32.24 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr4 Chain: 8
Molecule details ›
Chain: 8
Length: 270 amino acids
Theoretical weight: 29.7 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcf6 Chain: 9
Molecule details ›
Chain: 9
Length: 214 amino acids
Theoretical weight: 23.52 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcr3 Chain: 10
Molecule details ›
Chain: 10
Length: 207 amino acids
Theoretical weight: 22.22 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcq13 Chain: 11
Molecule details ›
Chain: 11
Length: 229 amino acids
Theoretical weight: 24.84 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcq3 Chain: 12
Molecule details ›
Chain: 12
Length: 204 amino acids
Theoretical weight: 21.32 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcq11 Chain: 13
Molecule details ›
Chain: 13
Length: 244 amino acids
Theoretical weight: 25.99 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcq10 Chain: 14
Molecule details ›
Chain: 14
Length: 249 amino acids
Theoretical weight: 26.88 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcq8 Chain: 15
Molecule details ›
Chain: 15
Length: 281 amino acids
Theoretical weight: 30.55 KDa
Source organism: Chaetoceros gracilis
Fucoxanthin chlorophyll a/c-binding protein Lhcq5 Chain: 16
Molecule details ›
Chain: 16
Length: 218 amino acids
Theoretical weight: 23.53 KDa
Source organism: Chaetoceros gracilis

Ligands and Environments

11 bound ligands:
Ligand CL0 1 x CL0
Ligand CLA 221 x CLA
Ligand PQN 2 x PQN
Ligand SF4 3 x SF4
Ligand BCR 20 x BCR
Ligand LHG 7 x LHG
Ligand LMT 21 x LMT
Ligand LMG 13 x LMG
Ligand A86 54 x A86
Ligand KC1 54 x KC1
Ligand DD6 31 x DD6
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.4Å
Relevant EMDB volumes: EMD-0835

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