› 4pbu

X-ray diffraction
5Å resolution

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 38-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141187 (preferred)
Entry contents:
19 distinct polypeptide molecules
Macromolecules (19 distinct):
Photosystem II protein D1 1 Chains: A, a
Molecule details ›
Chains: A, a
Length: 334 amino acids
Theoretical weight: 37.03 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: P0A444 (Residues: 11-344; Coverage: 93%)
Gene names: psbA-1, psbA1, tlr1843
Sequence domains: Photosynthetic reaction centre protein
Photosystem II CP47 reaction center protein Chains: B, b
Molecule details ›
Chains: B, b
Length: 504 amino acids
Theoretical weight: 55.94 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DIQ1 (Residues: 2-505; Coverage: 99%)
Gene names: psbB, tlr1530
Sequence domains: Photosystem II protein
Photosystem II CP43 reaction center protein Chains: C, c
Molecule details ›
Chains: C, c
Length: 455 amino acids
Theoretical weight: 49.67 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DIF8 (Residues: 7-461; Coverage: 99%)
Gene names: psbC, tlr1631
Sequence domains: Photosystem II protein
Photosystem II D2 protein Chains: D, d
Molecule details ›
Chains: D, d
Length: 342 amino acids
Theoretical weight: 38.4 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8CM25 (Residues: 11-352; Coverage: 97%)
Gene names: psbD1, psbD2, tlr0455, tlr1630
Sequence domains: Photosynthetic reaction centre protein
Cytochrome b559 subunit alpha Chains: E, e
Molecule details ›
Chains: E, e
Length: 81 amino acids
Theoretical weight: 9.32 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DIP0 (Residues: 4-84; Coverage: 96%)
Gene names: psbE, tsr1541
Sequence domains:
Cytochrome b559 subunit beta Chains: F, f
Molecule details ›
Chains: F, f
Length: 34 amino acids
Theoretical weight: 3.87 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DIN9 (Residues: 12-45; Coverage: 76%)
Gene names: psbF, tsr1542
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: 65 amino acids
Theoretical weight: 7.23 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DJ43 (Residues: 2-66; Coverage: 99%)
Gene names: psbH, tsl1386
Sequence domains: Photosystem II 10 kDa phosphoprotein
Photosystem II reaction center protein I Chains: I, i
Molecule details ›
Chains: I, i
Length: 38 amino acids
Theoretical weight: 4.41 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DJZ6 (Residues: 1-38; Coverage: 100%)
Gene names: psbI, tsr1074
Sequence domains: Photosystem II reaction centre I protein (PSII 4.8 kDa protein)
Photosystem II reaction center protein J Chains: J, j
Molecule details ›
Chains: J, j
Length: 40 amino acids
Theoretical weight: 4.11 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: P59087 (Residues: 1-40; Coverage: 100%)
Gene names: psbJ, tsr1544
Sequence domains: PsbJ
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: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q9F1K9 (Residues: 10-46; Coverage: 80%)
Gene names: psbK, tsl0176
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: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DIN8 (Residues: 1-37; Coverage: 100%)
Gene names: psbL, tsr1543
Sequence domains: PsbL protein
Photosystem II reaction center protein M Chains: M, m
Molecule details ›
Chains: M, m
Length: 34 amino acids
Theoretical weight: 3.81 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DHA7 (Residues: 1-34; Coverage: 94%)
Gene names: psbM, tsl2052
Sequence domains: Photosystem II reaction centre M protein (PsbM)
Photosystem II extrinsic protein O Chains: O, o
Molecule details ›
Chains: O, o
Length: 243 amino acids
Theoretical weight: 26.52 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: P0A431 (Residues: 30-272; Coverage: 99%)
Gene names: psbO, tll0444
Sequence domains: Manganese-stabilising protein / photosystem II polypeptide
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: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DIQ0 (Residues: 1-30; Coverage: 94%)
Gene names: psbT, tsr1531
Sequence domains: Photosystem II reaction centre T protein
Photosystem II extrinsic protein U Chains: U, u
Molecule details ›
Chains: U, u
Length: 97 amino acids
Theoretical weight: 10.97 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q9F1L5 (Residues: 38-134; Coverage: 93%)
Gene names: psbU, tll2409
Sequence domains: Photosystem II 12 kDa extrinsic protein (PsbU)
Photosystem II extrinsic protein V Chains: V, v
Molecule details ›
Chains: V, v
Length: 137 amino acids
Theoretical weight: 15.15 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: P0A386 (Residues: 27-163; Coverage: 100%)
Gene names: psbV, tll1285
Sequence domains: Cytochrome c-550 domain
Photosystem II reaction center protein Psb30 Chains: Y, y
Molecule details ›
Chains: Y, y
Length: 29 amino acids
Theoretical weight: 3.1 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DJI1 (Residues: 18-46; Coverage: 63%)
Gene names: psb30, tsr1242, ycf12
Sequence domains: Photosystem II complex subunit Ycf12
Photosystem II reaction center protein X Chains: X, x
Molecule details ›
Chains: X, x
Length: 39 amino acids
Theoretical weight: 4.08 KDa
Source organism: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q9F1R6 (Residues: 2-40; Coverage: 95%)
Gene names: psbX, tsr2013
Sequence domains: Photosystem II reaction centre X protein (PsbX)
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: Thermosynechococcus vestitus BP-1
UniProt:
  • Canonical: Q8DHJ2 (Residues: 1-62; Coverage: 100%)
Gene names: psbZ, tsr1967
Sequence domains: YCF9

Ligands and Environments


Cofactor: Ligand HEM 4 x HEM
13 bound ligands:
Ligand OEX 2 x OEX
Ligand FE2 2 x FE2
Ligand CL 6 x CL
Ligand BCT 2 x BCT
Ligand CLA 70 x CLA
Ligand PHO 4 x PHO
Ligand BCR 22 x BCR
Ligand PL9 4 x PL9
Ligand SQD 8 x SQD
Ligand LHG 10 x LHG
Ligand CA 7 x CA
Ligand DGD 10 x DGD
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLAC LCLS BEAMLINE CXI
Spacegroup: P212121
Unit cell:
a: 133.25Å b: 226.26Å c: 307.09Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.261 0.261 0.262

Quick links

Citations

45 review citations

The Structure of Photosystem II and the Mechanism of Water Oxidation in Photosynthesis.
Shen JR. (2015)
44 more

6 mentions without citation

Serial femtosecond crystallography: A revolution in structural biology.
Martin-Garcia et al. (2016)
5 more