6JLU image
Deposition Date 2019-03-06
Release Date 2019-07-31
Last Version Date 2025-04-09
Entry Detail
PDB ID:
6JLU
Keywords:
PLANT PROTEIN
Title:
Structure of PSII-FCP supercomplex from a centric diatom Chaetoceros gracilis at 3.02 angstrom resolution
Biological Source:
Source Organism:
Chaetoceros gracilis (Taxon ID: 184592)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.02 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
6JLU validation report
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:FCP-E
Chain IDs:YA (auth: 0), IB (auth: 10)
Chain Length:178
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCP-A
Chain IDs:ZA (auth: 1), AB (auth: 2), BB (auth: 3), CB (auth: 4), DB (auth: 5), EB (auth: 6), FB (auth: 7), GB (auth: 8), JB (auth: 11), KB (auth: 12), LB (auth: 13), MB (auth: 14), NB (auth: 15), OB (auth: 16), PB (auth: 17), QB (auth: 18)
Chain Length:172
Number of Molecules:16
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCP-F
Chain IDs:HB (auth: 9), RB (auth: 19)
Chain Length:166
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbA
Chain IDs:A, Z (auth: a)
Chain Length:359
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbB
Chain IDs:B, AA (auth: b)
Chain Length:509
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbC
Chain IDs:C, BA (auth: c)
Chain Length:450
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbD
Chain IDs:D, CA (auth: d)
Chain Length:341
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbE
Chain IDs:E, DA (auth: e)
Chain Length:79
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbF
Chain IDs:F, EA (auth: f)
Chain Length:32
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:Psb31
Chain IDs:G, FA (auth: g)
Chain Length:179
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein H
Gene (Uniprot):psbH
Chain IDs:H, GA (auth: h)
Chain Length:65
Number of Molecules:2
Biological Source:Chaetoceros gracilis
UniProt ID:B7XBY7 Pfam ID:PF00737
Polymer Type:polypeptide(L)
Molecule:PsbI
Chain IDs:I, HA (auth: i)
Chain Length:34
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbJ
Chain IDs:J, IA (auth: j)
Chain Length:34
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbK
Chain IDs:K, JA (auth: k)
Chain Length:37
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbL
Chain IDs:L, KA (auth: l)
Chain Length:38
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbM
Chain IDs:M, LA (auth: m)
Chain Length:41
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:Psb34
Chain IDs:N, MA (auth: n)
Chain Length:30
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Extrinsic protein in photosystem II
Gene (Uniprot):psbO
Chain IDs:O, NA (auth: o)
Chain Length:249
Number of Molecules:2
Biological Source:Chaetoceros gracilis
UniProt ID:B6ZHE8 Pfam ID:PF01716
Polymer Type:polypeptide(L)
Molecule:FCP-D
Chain IDs:P, OA (auth: p)
Chain Length:226
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Extrinsic protein in photosystem II
Gene (Uniprot):psbQ'
Chain IDs:Q, PA (auth: q)
Chain Length:211
Number of Molecules:2
Biological Source:Chaetoceros gracilis
UniProt ID:B6ZHE9
Polymer Type:polypeptide(L)
Molecule:PsbG
Chain IDs:R, QA (auth: r)
Chain Length:73
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbT
Chain IDs:S (auth: T), RA (auth: t)
Chain Length:31
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Extrinsic protein in photosystem II
Gene (Uniprot):psbU
Chain IDs:T (auth: U), SA (auth: u)
Chain Length:93
Number of Molecules:2
Biological Source:Chaetoceros gracilis
UniProt ID:B6ZHF0 Pfam ID:PF06514
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c-550
Gene (Uniprot):psbV
Chain IDs:U (auth: V), TA (auth: v)
Chain Length:137
Number of Molecules:2
Biological Source:Chaetoceros gracilis
UniProt ID:B6ZHF4 Pfam ID:PF14495
Polymer Type:polypeptide(L)
Molecule:PsbW
Chain IDs:V (auth: W), UA (auth: w)
Chain Length:51
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center X protein
Gene (Uniprot):psbX
Chain IDs:W (auth: X), VA (auth: x)
Chain Length:35
Number of Molecules:2
Biological Source:Chaetoceros gracilis
UniProt ID:B6ZHF2 Pfam ID:PF06596
Polymer Type:polypeptide(L)
Molecule:PsbY
Chain IDs:X (auth: Y), WA (auth: y)
Chain Length:33
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsbZ
Chain IDs:Y (auth: Z), XA (auth: z)
Chain Length:61
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Ligand Molecules
A86
BCR
BCT
CL
CLA
DD6
DGD
FE2
HEM
KC1
KC2
LHG
LMG
OEX
PHO
PL9
SQD
Primary Citation
The pigment-protein network of a diatom photosystem II-light-harvesting antenna supercomplex.
Science 365 ? ? (2019)
PMID: 31371578 DOI: 10.1126/science.aax4406

Abstact

Diatoms play important roles in global primary productivity and biogeochemical cycling of carbon, in part owing to the ability of their photosynthetic apparatus to adapt to rapidly changing light intensity. We report a cryo-electron microscopy structure of the photosystem II (PSII)-fucoxanthin (Fx) chlorophyll (Chl) a/c binding protein (FCPII) supercomplex from the centric diatom Chaetoceros gracilis The supercomplex comprises two protomers, each with two tetrameric and three monomeric FCPIIs around a PSII core that contains five extrinsic oxygen-evolving proteins at the lumenal surface. The structure reveals the arrangement of a huge pigment network that contributes to efficient light energy harvesting, transfer, and dissipation processes in the diatoms.

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Disease

Primary Citation of related structures
6JLU