› 1s5l

X-ray diffraction
3.5Å resolution

Architecture of the photosynthetic oxygen evolving center

Released:
DOI: 10.2210/pdb1s5l/pdb
PDB entry 1s5l coloured by chain, front view.
PDB entry 1s5l coloured by chain, side view.
PDB entry 1s5l coloured by chain, top view.
Source organism: Thermosynechococcus vestitus
Primary publication:
Architecture of the photosynthetic oxygen-evolving center.
Ferreira KN, Iverson TM, Maghlaoui K, Barber J, Iwata S
Science 303 1831-8 (2004)
PMID: 14764885

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 nonadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141171 (preferred)
Entry contents:
19 distinct polypeptide molecules
Macromolecules (19 distinct):
Photosystem II protein D1 1 Chains: A, a
Molecule details ›
Chains: A, a
Length: 344 amino acids
Theoretical weight: 38.27 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: P0A444 (Residues: 1-344; Coverage: 96%)
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: 510 amino acids
Theoretical weight: 56.66 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DIQ1 (Residues: 1-510; Coverage: 100%)
Gene names: psbB, tlr1530
Sequence domains: Photosystem II protein
Structure domains: Photosystem II CP47 reaction center protein
Photosystem II CP43 reaction center protein Chains: C, c
Molecule details ›
Chains: C, c
Length: 473 amino acids
Theoretical weight: 51.67 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DIF8 (Residues: 2-461; Coverage: 100%)
Gene names: psbC, tlr1631
Sequence domains: Photosystem II protein
Structure domains: photosystem ii from thermosynechococcus elongatus
Photosystem II D2 protein Chains: D, d
Molecule details ›
Chains: D, d
Length: 352 amino acids
Theoretical weight: 39.39 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8CM25 (Residues: 1-352; Coverage: 100%)
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: 84 amino acids
Theoretical weight: 9.58 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DIP0 (Residues: 1-84; Coverage: 100%)
Gene names: psbE, tsr1541
Sequence domains:
Structure domains: Photosystem II cytochrome b559, alpha subunit
Cytochrome b559 subunit beta Chains: F, f
Molecule details ›
Chains: F, f
Length: 45 amino acids
Theoretical weight: 5.07 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DIN9 (Residues: 1-45; Coverage: 100%)
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: 66 amino acids
Theoretical weight: 7.36 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DJ43 (Residues: 1-66; Coverage: 100%)
Gene names: psbH, tsl1386
Sequence domains: Photosystem II 10 kDa phosphoprotein
Structure domains: Photosystem II reaction center protein H
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
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
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
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
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: 36 amino acids
Theoretical weight: 3.98 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DHA7 (Residues: 1-36; Coverage: 100%)
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: 246 amino acids
Theoretical weight: 26.85 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: P0A431 (Residues: 27-272; Coverage: 100%)
Gene names: psbO, tll0444
Sequence domains: Manganese-stabilising protein / photosystem II polypeptide
Structure domains:
Photosystem II reaction center protein T Chains: T, t
Molecule details ›
Chains: T, t
Length: 32 amino acids
Theoretical weight: 3.88 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q8DIQ0 (Residues: 1-32; Coverage: 100%)
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: 134 amino acids
Theoretical weight: 15.03 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q9F1L5 (Residues: 1-134; Coverage: 100%)
Gene names: psbU, tll2409
Sequence domains: Photosystem II 12 kDa extrinsic protein (PsbU)
Structure domains: Photosystem II 12 kDa extrinsic protein
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
UniProt:
  • Canonical: P0A386 (Residues: 27-163; Coverage: 100%)
Gene names: psbV, tll1285
Sequence domains: Cytochrome c-550 domain
Structure domains: Cytochrome c-like domain
Photosystem II reaction center protein X Chains: X, x
Molecule details ›
Chains: X, x
Length: 50 amino acids
Theoretical weight: 5.24 KDa
Source organism: Thermosynechococcus vestitus
UniProt:
  • Canonical: Q9F1R6 (Residues: 2-41; Coverage: 98%)
Gene names: psbX, tsr2013
Sequence domains: Photosystem II reaction centre X protein (PsbX)
Structure domains: Single helix bin
Photosystem II PsbN protein Chains: N, n
Molecule details ›
Chains: N, n
Length: 37 amino acids
Theoretical weight: 3.17 KDa
Source organism: Thermosynechococcus vestitus
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
UniProt:
  • Canonical: Q8DHJ2 (Residues: 1-62; Coverage: 100%)
Gene names: psbZ, tsr1967
Sequence domains: YCF9
Structure domains: Photosystem II PsbZ, reaction centre

Ligands and Environments


Cofactor: Ligand HEC 4 x HEC
8 bound ligands:
Ligand FE 2 x FE
Ligand BCT 4 x BCT
Ligand OEC 2 x OEC
Ligand CLA 72 x CLA
Ligand PHO 4 x PHO
Ligand PL9 4 x PL9
Ligand LMT 2 x LMT
Ligand BCR 14 x BCR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P212121
Unit cell:
a: 134.992Å b: 228.849Å c: 309.94Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.296 0.296 0.342

Quick links

Citations

246 review citations

Proton-coupled electron transfer.
Huynh et al. (2007)
245 more

27 mentions without citation

Protein design: toward functional metalloenzymes.
Yu et al. (2014)
26 more