› 7czl

Electron Microscopy
3.78Å resolution

Structural insights into a dimeric Psb27-photosystem II complex from a cyanobacterium Thermosynechococcus vulcanus

Released:
DOI: 10.2210/pdb7czl/pdb
PDB entry 7czl coloured by chain, front view.
PDB entry 7czl coloured by chain, side view.
PDB entry 7czl coloured by chain, top view.
Source organism: Thermostichus vulcanus
Primary publication:
Structural insights into a dimeric Psb27-photosystem II complex from a cyanobacterium Thermosynechococcus vulcanus.
Huang G, Xiao Y, Pi X, Zhao L, Zhu Q, Wang W, Kuang T, Han G, Sui SF, Shen JR
Proc Natl Acad Sci U S A 118 (2021)
PMID: 33495333
Related structures: EMD-30511

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 32-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112076 (preferred)
Entry contents:
16 distinct polypeptide molecules
Macromolecules (16 distinct):
Photosystem II protein D1 Chains: A, a
Molecule details ›
Chains: A, a
Length: 324 amino acids
Theoretical weight: 35.89 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P51765 (Residues: 10-333; Coverage: 90%)
Gene names: psbA, psbA-1
Sequence domains: Photosynthetic reaction centre protein
Photosystem II CP47 reaction center protein Chains: B, b
Molecule details ›
Chains: B, b
Length: 505 amino acids
Theoretical weight: 56.1 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: D0VWR1 (Residues: 1-505; Coverage: 100%)
Gene name: psbB
Sequence domains: Photosystem II protein
Photosystem II CP43 reaction center protein Chains: C, c
Molecule details ›
Chains: C, c
Length: 446 amino acids
Theoretical weight: 48.65 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: D0VWR7 (Residues: 5-450; Coverage: 99%)
Gene name: psbC
Sequence domains: Photosystem II protein
Photosystem II D2 protein Chains: D, d
Molecule details ›
Chains: D, d
Length: 339 amino acids
Theoretical weight: 38.01 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: D0VWR8 (Residues: 3-341; Coverage: 99%)
Gene name: psbD
Sequence domains: Photosynthetic reaction centre protein
Cytochrome b559 subunit alpha Chains: E, e
Molecule details ›
Chains: E, e
Length: 65 amino acids
Theoretical weight: 7.5 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P12238 (Residues: 20-84; Coverage: 77%)
Gene name: psbE
Sequence domains:
Cytochrome b559 subunit beta Chains: F, f
Molecule details ›
Chains: F, f
Length: 31 amino acids
Theoretical weight: 3.46 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P12239 (Residues: 14-44; Coverage: 69%)
Gene name: psbF
Sequence domains: Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits
Photosystem II reaction center protein H Chains: H, h
Molecule details ›
Chains: H, h
Length: 62 amino acids
Theoretical weight: 6.99 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P19052 (Residues: 1-62; Coverage: 95%)
Gene name: psbH
Sequence domains: Photosystem II 10 kDa phosphoprotein
Photosystem II reaction center protein I Chains: I, i
Molecule details ›
Chains: I, i
Length: 34 amino acids
Theoretical weight: 3.92 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P12240 (Residues: 1-34; Coverage: 90%)
Gene name: psbI
Sequence domains: Photosystem II reaction centre I protein (PSII 4.8 kDa protein)
Photosystem II reaction center protein K Chains: K, k
Molecule details ›
Chains: K, k
Length: 37 amino acids
Theoretical weight: 4.1 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P19054 (Residues: 1-37; Coverage: 100%)
Gene name: psbK
Sequence domains: Photosystem II 4 kDa reaction centre component
Photosystem II reaction center protein L Chains: L, l
Molecule details ›
Chains: L, l
Length: 37 amino acids
Theoretical weight: 4.3 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P12241 (Residues: 1-37; Coverage: 100%)
Gene name: psbL
Sequence domains: PsbL protein
Photosystem II reaction center protein M Chains: M, m
Molecule details ›
Chains: M, m
Length: 33 amino acids
Theoretical weight: 3.68 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P12312 (Residues: 1-33; Coverage: 92%)
Gene name: psbM
Sequence domains: Photosystem II reaction centre M protein (PsbM)
Photosystem II reaction center protein T Chains: T, t
Molecule details ›
Chains: T, t
Length: 30 amino acids
Theoretical weight: 3.62 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: P12313 (Residues: 1-30; Coverage: 94%)
Gene name: psbT
Sequence domains: Photosystem II reaction centre T protein
Photosystem II reaction center protein Z Chains: Z, z
Molecule details ›
Chains: Z, z
Length: 62 amino acids
Theoretical weight: 6.77 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: D0VWR5 (Residues: 1-62; Coverage: 100%)
Gene name: psbZ
Sequence domains: YCF9
Photosystem II reaction center protein Psb30 Chains: Y, y
Molecule details ›
Chains: Y, y
Length: 30 amino acids
Theoretical weight: 3.23 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: D0VWR3 (Residues: 1-30; Coverage: 100%)
Gene names: psb30, psbY, ycf12
Sequence domains: Photosystem II complex subunit Ycf12
Psb27 Chains: N, n
Molecule details ›
Chains: N, n
Length: 108 amino acids
Theoretical weight: 12.23 KDa
Source organism: Thermostichus vulcanus
Photosystem II reaction center protein X Chains: X, x
Molecule details ›
Chains: X, x
Length: 40 amino acids
Theoretical weight: 4.19 KDa
Source organism: Thermostichus vulcanus
UniProt:
  • Canonical: D0VWR4 (Residues: 1-40; Coverage: 100%)
Gene name: psbX
Sequence domains: Photosystem II reaction centre X protein (PsbX)

Ligands and Environments


Cofactor: Ligand HEM 2 x HEM
13 bound ligands:
Ligand CLA 70 x CLA
Ligand PHO 4 x PHO
Ligand PQ9 4 x PQ9
Ligand BCR 22 x BCR
Ligand LHG 2 x LHG
Ligand LMT 6 x LMT
Ligand SQD 6 x SQD
Ligand BCT 2 x BCT
Ligand MGE 14 x MGE
Ligand DGD 8 x DGD
Ligand CA 2 x CA
Ligand FE2 2 x FE2
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.78Å
Relevant EMDB volumes: EMD-30511

Quick links

Citations

5 review citations

Advances in the Understanding of the Lifecycle of Photosystem II.
Johnson et al. (2022)
4 more

2 mentions without citation

High-resolution cryo-electron microscopy structure of photosystem II from the mesophilic cyanobacterium, Synechocystis sp. PCC 6803.
Gisriel et al. (2022)
1 more