› 3jcu

Electron Microscopy
3.2Å resolution

Cryo-EM structure of spinach PSII-LHCII supercomplex at 3.2 Angstrom resolution

Released:
DOI: 10.2210/pdb3jcu/pdb
PDB entry 3jcu coloured by chain, front view.
PDB entry 3jcu coloured by chain, side view.
PDB entry 3jcu coloured by chain, top view.
Source organism: Spinacia oleracea
Primary publication:
Structure of spinach photosystem II-LHCII supercomplex at 3.2 A resolution
Wei XP, Su XD, Cao P, Liu XY, Chang WR, Li M, Zhang XZ, Liu ZF
Nature 534 69-74 (2016)
Related structures: EMD-6617

Function and Biology Details

Reaction catalysed: 
2 H(2)O + 2 plastoquinone + 4 light = O(2) + 2 plastoquinol
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 50-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-236886 (preferred)
Entry contents:
23 distinct polypeptide molecules
Macromolecules (23 distinct):
Photosystem II protein D1 Chains: A, a
Molecule details ›
Chains: A, a
Length: 344 amino acids
Theoretical weight: 38.13 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P69560 (Residues: 1-344; Coverage: 98%)
Gene name: psbA
Sequence domains: Photosynthetic reaction centre protein
Photosystem II CP47 reaction center protein Chains: B, b
Molecule details ›
Chains: B, b
Length: 508 amino acids
Theoretical weight: 56.21 KDa
Source organism: Spinacia oleracea
UniProt:
  • Canonical: P04160 (Residues: 1-508; Coverage: 100%)
Gene name: psbB
Sequence domains: Photosystem II protein
Structure domains: Photosystem II CP47 reaction center protein
Photosystem II CP43 reaction center protein Chains: C, c
Photosystem II D2 protein Chains: D, d
Cytochrome b559 subunit alpha Chains: E, e
Cytochrome b559 subunit beta Chains: F, f
Chlorophyll a-b binding protein, chloroplastic Chains: G, N, Y, g, n, y
Photosystem II reaction center protein H Chains: H, h
Photosystem II reaction center protein I Chains: I, i
Photosystem II reaction center protein J Chains: J, j
Photosystem II reaction center protein K Chains: K, k
Photosystem II reaction center protein L Chains: L, l
Photosystem II reaction center protein M Chains: M, m
Oxygen-evolving enhancer protein 1, chloroplastic Chains: O, o
Oxygen-evolving enhancer protein 2, chloroplastic Chains: P, p
Oxygen-evolving enhancer protein 3, chloroplastic Chains: Q, q
Chlorophyll a-b binding protein, chloroplastic Chains: R, r
Chlorophyll A-B Binding protein 26 kD (CP26) Chains: S, s
Photosystem II reaction center protein T Chains: T, t
Photosystem II Reaction Center Tn protein Chains: U, u
Photosystem II reaction center W protein, chloroplastic Chains: W, w
Photosystem II Reaction Center X protein Chains: X, x
Photosystem II reaction center protein Z Chains: Z, z

Ligands and Environments


Cofactor: Ligand HEM 2 x HEM
16 bound ligands:
Ligand OEX 2 x OEX
Ligand FE2 2 x FE2
Ligand CL 4 x CL
Ligand CLA 156 x CLA
Ligand PHO 4 x PHO
Ligand BCR 20 x BCR
Ligand SQD 6 x SQD
Ligand LMG 10 x LMG
Ligand DGD 8 x DGD
Ligand BCT 2 x BCT
Ligand PL9 2 x PL9
Ligand LHG 18 x LHG
Ligand CHL 50 x CHL
Ligand LUT 18 x LUT
Ligand XAT 8 x XAT
Ligand NEX 10 x NEX
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.2Å
Relevant EMDB volumes: EMD-6617

Quick links

Citations

27 review citations

Unravelling biological macromolecules with cryo-electron microscopy.
Fernandez-Leiro et al. (2016)
26 more

33 mentions without citation

Photosynthesis.
Johnson MP. (2016)
32 more