PDBe 4v62

X-ray diffraction
2.9Å resolution

Crystal Structure of cyanobacterial Photosystem II

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 20-mer (preferred)
Entry contents:
20 distinct polypeptide molecules
Macromolecules (20 distinct):
Photosystem II protein D1 1 Chains: AA, BA
Molecule details ›
Chains: AA, BA
Length: 344 amino acids
Theoretical weight: 38.27 KDa
Source organism: Thermosynechococcus elongatus BP-1
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: AB, BB
Molecule details ›
Chains: AB, BB
Length: 510 amino acids
Theoretical weight: 56.66 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DIQ1 (Residues: 1-510; Coverage: 100%)
Gene names: psbB, tlr1530
Sequence domains: Photosystem II protein
Photosystem II CP43 reaction center protein Chains: AC, BC
Molecule details ›
Chains: AC, BC
Length: 473 amino acids
Theoretical weight: 51.67 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DIF8 (Residues: 1-461; Coverage: 100%)
Gene names: psbC, tlr1631
Sequence domains: Photosystem II protein
Photosystem II D2 protein Chains: AD, BD
Molecule details ›
Chains: AD, BD
Length: 352 amino acids
Theoretical weight: 39.39 KDa
Source organism: Thermosynechococcus elongatus BP-1
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: AE, BE
Molecule details ›
Chains: AE, BE
Length: 84 amino acids
Theoretical weight: 9.58 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DIP0 (Residues: 1-84; Coverage: 100%)
Gene names: psbE, tsr1541
Sequence domains:
Cytochrome b559 subunit beta Chains: AF, BF
Molecule details ›
Chains: AF, BF
Length: 45 amino acids
Theoretical weight: 5.07 KDa
Source organism: Thermosynechococcus elongatus BP-1
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: AH, BH
Molecule details ›
Chains: AH, BH
Length: 66 amino acids
Theoretical weight: 7.36 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DJ43 (Residues: 1-66; Coverage: 100%)
Gene names: psbH, tsl1386
Sequence domains: Photosystem II 10 kDa phosphoprotein
Photosystem II reaction center protein I Chains: AI, BI
Molecule details ›
Chains: AI, BI
Length: 38 amino acids
Theoretical weight: 4.41 KDa
Source organism: Thermosynechococcus elongatus 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: AJ, BJ
Molecule details ›
Chains: AJ, BJ
Length: 40 amino acids
Theoretical weight: 4.11 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: P59087 (Residues: 1-40; Coverage: 100%)
Gene names: psbJ, tsr1544
Sequence domains: PsbJ
Photosystem II reaction center protein K Chains: AK, BK
Molecule details ›
Chains: AK, BK
Length: 37 amino acids
Theoretical weight: 4.1 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q9F1K9 (Residues: 10-46; Coverage: 80%)
Gene names: psbK, tsl0176
Photosystem II reaction center protein L Chains: AL, BL
Molecule details ›
Chains: AL, BL
Length: 37 amino acids
Theoretical weight: 4.3 KDa
Source organism: Thermosynechococcus elongatus 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: AM, BM
Molecule details ›
Chains: AM, BM
Length: 36 amino acids
Theoretical weight: 3.98 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DHA7 (Residues: 1-36; Coverage: 100%)
Gene names: psbM, tsl2052
Sequence domains: Photosystem II reaction centre M protein (PsbM)
Photosystem II manganese-stabilizing polypeptide Chains: AO, BO
Molecule details ›
Chains: AO, BO
Length: 247 amino acids
Theoretical weight: 26.92 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: P0A431 (Residues: 26-272; Coverage: 100%)
Gene names: psbO, tll0444
Sequence domains: Manganese-stabilising protein / photosystem II polypeptide
Photosystem II reaction center protein T Chains: AT, BT
Molecule details ›
Chains: AT, BT
Length: 32 amino acids
Theoretical weight: 3.88 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DIQ0 (Residues: 1-32; Coverage: 100%)
Gene names: psbT, tsr1531
Sequence domains: Photosystem II reaction centre T protein
Photosystem II 12 kDa extrinsic protein Chains: AU, BU
Molecule details ›
Chains: AU, BU
Length: 104 amino acids
Theoretical weight: 11.66 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q9F1L5 (Residues: 31-134; Coverage: 100%)
Gene names: psbU, tll2409
Sequence domains: Photosystem II 12 kDa extrinsic protein (PsbU)
Cytochrome c-550 Chains: AV, BV
Molecule details ›
Chains: AV, BV
Length: 137 amino acids
Theoretical weight: 15.15 KDa
Source organism: Thermosynechococcus elongatus 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 Ycf12 Chains: Ay, By
Molecule details ›
Chains: Ay, By
Length: 46 amino acids
Theoretical weight: 5.04 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DJI1 (Residues: 1-46; Coverage: 100%)
Gene names: tsr1242, ycf12
Sequence domains: Photosystem II complex subunit Ycf12
Photosystem II reaction center X protein Chains: AX, BX
Molecule details ›
Chains: AX, BX
Length: 50 amino acids
Theoretical weight: 5.24 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q9F1R6 (Residues: 1-41; Coverage: 100%)
Gene names: psbX, tsr2013
Sequence domains: Photosystem II reaction centre X protein (PsbX)
Photosystem II protein Y Chains: AY, BY
Molecule details ›
Chains: AY, BY
Length: 28 amino acids
Theoretical weight: 2.4 KDa
Source organism: Thermosynechococcus elongatus BP-1
Photosystem II reaction center protein Z Chains: AZ, BZ
Molecule details ›
Chains: AZ, BZ
Length: 62 amino acids
Theoretical weight: 6.77 KDa
Source organism: Thermosynechococcus elongatus BP-1
UniProt:
  • Canonical: Q8DHJ2 (Residues: 1-62; Coverage: 100%)
Gene names: psbZ, tsr1967
Sequence domains: YCF9

Ligands and Environments

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P212121
Unit cell:
a: 127.692Å b: 225.403Å c: 306.106Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.249 0.249 0.292