› 8xlp

Electron Microscopy
2.57Å resolution

Structure of inactive Photosystem II associated with CAC antenna from Rhodomonas Salina

Released:
DOI: 10.2210/pdb8xlp/pdb
PDB entry 8xlp coloured by chain, front view.
PDB entry 8xlp coloured by chain, side view.
PDB entry 8xlp coloured by chain, top view.
Source organism: Rhodomonas salina
Entry authors: Si L, Li M
Related structures: EMD-38455

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 46-mer (preferred)
PDBe Complex ID:
PDB-CPX-247573 (preferred)
Entry contents:
23 distinct polypeptide molecules
Macromolecules (23 distinct):
Photosystem II protein D1 Chains: A, a
Molecule details ›
Chains: A, a
Length: 328 amino acids
Theoretical weight: 36.34 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVT2 (Residues: 9-336; Coverage: 91%)
Gene name: psbA
Sequence domains: Photosynthetic reaction centre protein
Photosystem II CP47 reaction center protein Chains: B, b
Molecule details ›
Chains: B, b
Length: 509 amino acids
Theoretical weight: 56.33 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MW31 (Residues: 1-509; 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: 487 amino acids
Theoretical weight: 53.61 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVR2 (Residues: 1-487; Coverage: 100%)
Gene name: psbC
Sequence domains: Photosystem II protein
Photosystem II D2 protein Chains: D, d
Molecule details ›
Chains: D, d
Length: 351 amino acids
Theoretical weight: 39.22 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVR3 (Residues: 1-351; Coverage: 100%)
Gene name: psbD
Sequence domains: Photosynthetic reaction centre protein
Cytochrome b559 subunit alpha Chains: E, e
Molecule details ›
Chains: E, e
Length: 84 amino acids
Theoretical weight: 9.5 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVV5 (Residues: 1-84; Coverage: 100%)
Gene name: psbE
Sequence domains:
Cytochrome b559 subunit beta Chains: F, f
Molecule details ›
Chains: F, f
Length: 42 amino acids
Theoretical weight: 4.86 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVV4 (Residues: 1-42; Coverage: 100%)
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: 67 amino acids
Theoretical weight: 7.43 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MW35 (Residues: 1-67; Coverage: 100%)
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: 38 amino acids
Theoretical weight: 4.39 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVW0 (Residues: 1-38; Coverage: 100%)
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: 45 amino acids
Theoretical weight: 5.03 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVZ3 (Residues: 1-45; 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: 38 amino acids
Theoretical weight: 4.36 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVV3 (Residues: 1-38; Coverage: 100%)
Gene name: psbL
Sequence domains: PsbL protein
Photosystem II protein M Chains: M, m
Molecule details ›
Chains: M, m
Length: 40 amino acids
Theoretical weight: 4.3 KDa
Source organism: Rhodomonas salina
Photosystem II reaction center protein T Chains: T, t
Molecule details ›
Chains: T, t
Length: 32 amino acids
Theoretical weight: 3.71 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MW32 (Residues: 1-32; Coverage: 100%)
Gene name: psbT
Sequence domains: Photosystem II reaction centre T protein
Photosystem II protein W Chains: W, w
Molecule details ›
Chains: W, w
Length: 74 amino acids
Theoretical weight: 7.86 KDa
Source organism: Rhodomonas salina
Photosystem II reaction center protein X Chains: X, x
Molecule details ›
Chains: X, x
Length: 39 amino acids
Theoretical weight: 4.19 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVU5 (Residues: 1-39; Coverage: 100%)
Gene name: psbX
Sequence domains: Photosystem II reaction centre X protein (PsbX)
Photosystem II reaction center protein Psb30 Chains: Y, y
Molecule details ›
Chains: Y, y
Length: 34 amino acids
Theoretical weight: 3.66 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVU9 (Residues: 1-34; Coverage: 100%)
Gene names: psb30, ycf12
Sequence domains: Photosystem II complex subunit Ycf12
Photosystem II reaction center protein Z Chains: Z, z
Molecule details ›
Chains: Z, z
Length: 62 amino acids
Theoretical weight: 6.66 KDa
Source organism: Rhodomonas salina
UniProt:
  • Canonical: A6MVZ2 (Residues: 1-62; Coverage: 100%)
Gene name: psbZ
Sequence domains: YCF9
NCP Chains: G, g
Molecule details ›
Chains: G, g
Length: 284 amino acids
Theoretical weight: 30.76 KDa
Source organism: Rhodomonas salina
CAC2 Chains: 2, O
Molecule details ›
Chains: 2, O
Length: 217 amino acids
Theoretical weight: 23.91 KDa
Source organism: Rhodomonas salina
CAC3 Chains: 3, P
Molecule details ›
Chains: 3, P
Length: 221 amino acids
Theoretical weight: 23.72 KDa
Source organism: Rhodomonas salina
CAC4 Chains: 4, Q
Molecule details ›
Chains: 4, Q
Length: 216 amino acids
Theoretical weight: 23.11 KDa
Source organism: Rhodomonas salina
CAC5 Chains: 5, R
Molecule details ›
Chains: 5, R
Length: 229 amino acids
Theoretical weight: 24.74 KDa
Source organism: Rhodomonas salina
CAC6 Chains: 6, S
Molecule details ›
Chains: 6, S
Length: 227 amino acids
Theoretical weight: 24.79 KDa
Source organism: Rhodomonas salina
CAC1 Chains: 1, N
Molecule details ›
Chains: 1, N
Length: 233 amino acids
Theoretical weight: 25.27 KDa
Source organism: Rhodomonas salina

Ligands and Environments


Cofactor: Ligand HEM 2 x HEM
15 bound ligands:
Ligand FE2 2 x FE2
Ligand CLA 194 x CLA
Ligand PHO 4 x PHO
Ligand WVN 24 x WVN
Ligand SQD 4 x SQD
Ligand PL9 4 x PL9
Ligand BCT 2 x BCT
Ligand LHG 20 x LHG
Ligand CL 4 x CL
Ligand MN 4 x MN
Ligand LMG 22 x LMG
Ligand DGD 4 x DGD
Ligand KC2 24 x KC2
Ligand II0 48 x II0
Ligand IHT 8 x IHT
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.57Å
Relevant EMDB volumes: EMD-38455

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