6LY5 image
Deposition Date 2020-02-13
Release Date 2020-10-21
Last Version Date 2025-04-09
Entry Detail
PDB ID:
6LY5
Keywords:
Title:
Organization and energy transfer in a huge diatom PSI-FCPI supercomplex
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.38 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:FCPI-7
Chain IDs:A
Chain Length:168
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-1
Chain IDs:B
Chain Length:733
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-11
Chain IDs:C
Chain Length:198
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-6
Chain IDs:D
Chain Length:207
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-5
Chain IDs:E
Chain Length:63
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-8
Chain IDs:F
Chain Length:215
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-4
Chain IDs:G
Chain Length:245
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-10
Chain IDs:H
Chain Length:203
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-3
Chain IDs:I
Chain Length:40
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-9
Chain IDs:J
Chain Length:42
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-13
Chain IDs:K
Chain Length:207
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-14
Chain IDs:L
Chain Length:229
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-16
Chain IDs:M
Chain Length:29
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-21
Chain IDs:N
Chain Length:219
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI
Chain IDs:O, P, Q
Chain Length:205
Number of Molecules:3
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-24
Chain IDs:R
Chain Length:246
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-23
Chain IDs:S
Chain Length:254
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-12
Chain IDs:T
Chain Length:207
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-2
Chain IDs:IA (auth: U)
Chain Length:160
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-19
Chain IDs:JA (auth: V)
Chain Length:179
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:FCPI-17
Chain IDs:U (auth: W), V (auth: X)
Chain Length:198
Number of Molecules:2
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaA
Chain IDs:W (auth: a)
Chain Length:168
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaB
Chain IDs:X (auth: b)
Chain Length:733
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaC
Chain IDs:Y (auth: c)
Chain Length:198
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaD
Chain IDs:Z (auth: d)
Chain Length:207
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaE
Chain IDs:AA (auth: e)
Chain Length:63
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaF
Chain IDs:BA (auth: f)
Chain Length:215
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaS
Chain IDs:GA (auth: g)
Chain Length:245
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaR
Chain IDs:HA (auth: h)
Chain Length:203
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaI
Chain IDs:CA (auth: i)
Chain Length:40
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaJ
Chain IDs:DA (auth: j)
Chain Length:42
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaL
Chain IDs:EA (auth: l)
Chain Length:229
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Polymer Type:polypeptide(L)
Molecule:PsaM
Chain IDs:FA (auth: m)
Chain Length:29
Number of Molecules:1
Biological Source:Chaetoceros gracilis
Primary Citation
Structural basis for energy transfer in a huge diatom PSI-FCPI supercomplex.
Nat Commun 11 5081 5081 (2020)
PMID: 33033236 DOI: 10.1038/s41467-020-18867-x

Abstact

Diatom is an important group of marine algae and contributes to around 20% of the global photosynthetic carbon fixation. Photosystem I (PSI) of diatoms is associated with a large number of fucoxanthin-chlorophyll a/c proteins (FCPIs). We report the structure of PSI-FCPI from a diatom Chaetoceros gracilis at 2.38 Å resolution by single-particle cryo-electron microscopy. PSI-FCPI is a monomeric supercomplex consisting of 12 core and 24 antenna subunits (FCPIs), and 326 chlorophylls a, 34 chlorophylls c, 102 fucoxanthins, 35 diadinoxanthins, 18 β-carotenes and some electron transfer cofactors. Two subunits designated PsaR and PsaS were found in the core, whereas several subunits were lost. The large number of pigments constitute a unique and huge network ensuring efficient energy harvesting, transfer and dissipation. These results provide a firm structural basis for unraveling the mechanisms of light-energy harvesting, transfer and quenching in the diatom PSI-FCPI, and also important clues to evolutionary changes of PSI-LHCI.

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