7RCV image
Deposition Date 2021-07-08
Release Date 2021-12-29
Last Version Date 2024-10-23
Entry Detail
PDB ID:
7RCV
Keywords:
PHOTOSYNTHESIS
Title:
High-resolution structure of photosystem II from the mesophilic cyanobacterium, Synechocystis sp. PCC 6803
Biological Source:
Source Organism:
Synechocystis sp. (strain PCC 6803 / Kazusa) (Taxon ID: 1111708)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.01 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
7RCV validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II protein D1 2
Gene (Uniprot):psbA2, psbA3
Chain IDs:A, V (auth: a)
Chain Length:360
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P16033 Pfam ID:PF00124 EC:1.10.3.9
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II CP47 reaction center protein
Gene (Uniprot):psbB
Chain IDs:B, W (auth: b)
Chain Length:507
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P05429 Pfam ID:PF00421
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II CP43 reaction center protein
Gene (Uniprot):psbC
Chain IDs:C, X (auth: c)
Chain Length:460
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P09193 Pfam ID:PF00421
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II D2 protein
Gene (Uniprot):psbD
Chain IDs:D, Y (auth: d)
Chain Length:352
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P09192 Pfam ID:PF00124
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b559 subunit alpha
Gene (Uniprot):psbE
Chain IDs:E, Z (auth: e)
Chain Length:81
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P09190 Pfam ID:PF00283, PF00284
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b559 subunit beta
Gene (Uniprot):psbF
Chain IDs:F, AA (auth: f)
Chain Length:44
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P09191 Pfam ID:PF00283
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein H
Gene (Uniprot):psbH
Chain IDs:G (auth: H), BA (auth: h)
Chain Length:64
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P14835 Pfam ID:PF00737
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein I
Gene (Uniprot):psbI
Chain IDs:H (auth: I), CA (auth: i)
Chain Length:38
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:Q54697 Pfam ID:PF02532
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein J
Gene (Uniprot):psbJ
Chain IDs:I (auth: J), DA (auth: j)
Chain Length:39
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P73070 Pfam ID:PF01788
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein K
Gene (Uniprot):psbK
Chain IDs:J (auth: K), EA (auth: k)
Chain Length:45
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P15819 Pfam ID:PF02533
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein L
Gene (Uniprot):psbL
Chain IDs:K (auth: L), FA (auth: l)
Chain Length:39
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:Q55354 Pfam ID:PF02419
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein M
Gene (Uniprot):psbM
Chain IDs:L (auth: M), GA (auth: m)
Chain Length:35
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P72701 Pfam ID:PF05151
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II manganese-stabilizing polypeptide
Gene (Uniprot):psbO
Chain IDs:M (auth: O), HA (auth: o)
Chain Length:247
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P10549 Pfam ID:PF01716
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Sll1638 protein
Gene (Uniprot):psbQ
Chain IDs:N (auth: Q), IA (auth: q)
Chain Length:149
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P73048 Pfam ID:PF05757
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II protein Y
Gene (Uniprot):psbY
Chain IDs:O (auth: R), JA (auth: r)
Chain Length:39
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P73676 Pfam ID:PF06298
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein T
Gene (Uniprot):psbT
Chain IDs:P (auth: T), KA (auth: t)
Chain Length:31
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P74787 Pfam ID:PF01405
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II 12 kDa extrinsic protein
Gene (Uniprot):psbU
Chain IDs:Q (auth: U), LA (auth: u)
Chain Length:131
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:Q55332 Pfam ID:PF06514
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c-550
Gene (Uniprot):psbV
Chain IDs:R (auth: V), MA (auth: v)
Chain Length:160
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:Q55013 Pfam ID:PF14495
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center X protein
Gene (Uniprot):psbX
Chain IDs:S (auth: X), NA (auth: x)
Chain Length:39
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P72575 Pfam ID:PF06596
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein Ycf12
Gene (Uniprot):psb30
Chain IDs:T (auth: Y), OA (auth: y)
Chain Length:39
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:Q55438 Pfam ID:PF05969
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein Z
Gene (Uniprot):psbZ
Chain IDs:U (auth: Z), PA (auth: z)
Chain Length:62
Number of Molecules:2
Biological Source:Synechocystis sp. (strain PCC 6803 / Kazusa)
UniProt ID:P73528 Pfam ID:PF01737
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
FME H MET modified residue
Ligand Molecules
BCR
BCT
CA
CL
CLA
DGD
FE2
HEM
LHG
LMG
LMT
OEX
PHO
PL9
RRX
SQD
Primary Citation
High-resolution cryo-electron microscopy structure of photosystem II from the mesophilic cyanobacterium, Synechocystis sp. PCC 6803.
Proc.Natl.Acad.Sci.USA 119 ? ? (2022)
PMID: 34937700 DOI: 10.1073/pnas.2116765118

Abstact

Photosystem II (PSII) enables global-scale, light-driven water oxidation. Genetic manipulation of PSII from the mesophilic cyanobacterium Synechocystis sp. PCC 6803 has provided insights into the mechanism of water oxidation; however, the lack of a high-resolution structure of oxygen-evolving PSII from this organism has limited the interpretation of biophysical data to models based on structures of thermophilic cyanobacterial PSII. Here, we report the cryo-electron microscopy structure of PSII from Synechocystis sp. PCC 6803 at 1.93-Å resolution. A number of differences are observed relative to thermophilic PSII structures, including the following: the extrinsic subunit PsbQ is maintained, the C terminus of the D1 subunit is flexible, some waters near the active site are partially occupied, and differences in the PsbV subunit block the Large (O1) water channel. These features strongly influence the structural picture of PSII, especially as it pertains to the mechanism of water oxidation.

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Protein

Chemical

Disease

Primary Citation of related structures
7RCV