7YMM image
Deposition Date 2022-07-28
Release Date 2023-08-16
Last Version Date 2026-08-12
Entry Detail
PDB ID:
7YMM
Keywords:
PHOTOSYNTHESIS
Title:
PSII-Pcb Tetramer of Acaryochloris Marina
Biological Source:
Source Organism(s):
Acaryochloris marina MBIC11017 (Taxon ID: 329726)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
7YMM validation report missing
Macromolecular Entities
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:High light inducible protein
Gene (Uniprot):hli
Chain IDs:R (auth: 11), LA (auth: 21), FB (auth: 31), ZB (auth: 41)
Chain Length:356
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C576 Pfam ID:PF00421
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:High light inducible protein
Gene (Uniprot):hli
Chain IDs:P (auth: 12), JA (auth: 22), DB (auth: 32), XB (auth: 42)
Chain Length:352
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C3E5 Pfam ID:PF00421
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:High light inducible protein
Gene (Uniprot):hli
Chain IDs:S (auth: 13), MA (auth: 23), GB (auth: 33), AC (auth: 43)
Chain Length:349
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C6I0 Pfam ID:PF00421
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:High light inducible protein
Gene (Uniprot):hli
Chain IDs:T (auth: 14), NA (auth: 24), HB (auth: 34), BC (auth: 44)
Chain Length:353
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C3E6 Pfam ID:PF00421
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II protein D1 2
Gene (Uniprot):psbA2, psbA3
Chain IDs:A (auth: 1A), U (auth: 2A), OA (auth: 3A), IB (auth: 4A)
Chain Length:360
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:A5A8K9 Pfam ID:PF00124 EC:1.10.3.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II CP47 reaction
Gene (Uniprot):psbB
Chain IDs:B (auth: 1B), V (auth: 2B), PA (auth: 3B), JB (auth: 4B)
Chain Length:506
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0CFM2 Pfam ID:PF00421
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II CP43 reaction
Gene (Uniprot):psbC
Chain IDs:C (auth: 1C), W (auth: 2C), QA (auth: 3C), KB (auth: 4C)
Chain Length:490
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C1V7 Pfam ID:PF00421
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II D2 protein 1
Gene (Uniprot):psbD1, psbD2
Chain IDs:D (auth: 1D), X (auth: 2D), RA (auth: 3D), LB (auth: 4D)
Chain Length:351
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C1V6 Pfam ID:PF00124 EC:1.10.3.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b559 subunit alpha
Gene (Uniprot):psbE
Chain IDs:E (auth: 1E), Y (auth: 2E), SA (auth: 3E), MB (auth: 4E)
Chain Length:83
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C6T2 Pfam ID:PF00283, PF00284
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II protein Y
Gene (Uniprot):psbF
Chain IDs:F (auth: 1F), Z (auth: 2F), TA (auth: 3F), NB (auth: 4F)
Chain Length:99
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C2V2 Pfam ID:PF00283
Polymer Type:polypeptide(L)
Molecule:Unknown protein
Chain IDs:Q (auth: 1G), KA (auth: 2G), EB (auth: 3G), YB (auth: 4G)
Chain Length:41
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II 10 kDa phospho
Gene (Uniprot):psbH
Chain IDs:G (auth: 1H), AA (auth: 2H), UA (auth: 3H), OB (auth: 4H)
Chain Length:71
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0CDZ2 Pfam ID:PF00737
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II protein PsbI
Gene (Uniprot):psbI
Chain IDs:H (auth: 1I), BA (auth: 2I), VA (auth: 3I), PB (auth: 4I)
Chain Length:34
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C5R5 Pfam ID:PF02532
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Gene (Uniprot):psbK
Chain IDs:I (auth: 1K), CA (auth: 2K), WA (auth: 3K), QB (auth: 4K)
Chain Length:45
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C6Z7 Pfam ID:PF02533
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Gene (Uniprot):psbL
Chain IDs:J (auth: 1L), DA (auth: 2L), XA (auth: 3L), RB (auth: 4L)
Chain Length:38
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C6T1 Pfam ID:PF02419
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Gene (Uniprot):psbM
Chain IDs:K (auth: 1M), EA (auth: 2M), YA (auth: 3M), SB (auth: 4M)
Chain Length:34
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0CFM0 Pfam ID:PF05151
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Gene (Uniprot):psbT
Chain IDs:L (auth: 1T), FA (auth: 2T), ZA (auth: 3T), TB (auth: 4T)
Chain Length:46
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C605 Pfam ID:PF01405
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Gene (Uniprot):psbX
Chain IDs:M (auth: 1X), GA (auth: 2X), AB (auth: 3X), UB (auth: 4X)
Chain Length:40
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0BYW9 Pfam ID:PF06596
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Chain IDs:N (auth: 1Y), HA (auth: 2Y), BB (auth: 3Y), VB (auth: 4Y)
Chain Length:39
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction cente
Gene (Uniprot):psbZ
Chain IDs:O (auth: 1Z), IA (auth: 2Z), CB (auth: 3Z), WB (auth: 4Z)
Chain Length:62
Number of Molecules:4
Biological Source:Acaryochloris marina MBIC11017
UniProt ID:B0C0S7 Pfam ID:PF01737
Ligand Molecules
8CT
BCT
CL7
DGD
FE2
HEM
LHG
LMG
PHO
PL9
SQD
ZEX
Primary Citation
Structure of a unique PSII-Pcb tetrameric megacomplex in a chlorophyll d -containing cyanobacterium.
Sci Adv 10 eadk7140 eadk7140 (2024)
PMID: 38394197 DOI: 10.1126/sciadv.adk7140

Abstact

Acaryochloris marina is a unique cyanobacterium using chlorophyll d (Chl d) as its major pigment and thus can use far-red light for photosynthesis. Photosystem II (PSII) of A. marina associates with a number of prochlorophyte Chl-binding (Pcb) proteins to act as the light-harvesting system. We report here the cryo-electron microscopic structure of a PSII-Pcb megacomplex from A. marina at a 3.6-angstrom overall resolution and a 3.3-angstrom local resolution. The megacomplex is organized as a tetramer consisting of two PSII core dimers flanked by sixteen symmetrically related Pcb proteins, with a total molecular weight of 1.9 megadaltons. The structure reveals the detailed organization of PSII core consisting of 15 known protein subunits and an unknown subunit, the assembly of 4 Pcb antennas within each PSII monomer, and possible pathways of energy transfer within the megacomplex, providing deep insights into energy transfer and dissipation mechanisms within the PSII-Pcb megacomplex involved in far-red light utilization.

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Protein

Chemical

Disease

Primary Citation of related structures
7YMM
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