8J7Z

Structure of FCP trimer in Cyclotella meneghiniana


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.72 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural insights into photosystem II supercomplex and trimeric FCP antennae of a centric diatom Cyclotella meneghiniana.

Zhao, S.Shen, L.Li, X.Tao, Q.Li, Z.Xu, C.Zhou, C.Yang, Y.Sang, M.Han, G.Yu, L.J.Kuang, T.Shen, J.R.Wang, W.

(2023) Nat Commun 14: 8164-8164

  • DOI: https://doi.org/10.1038/s41467-023-44055-8
  • Primary Citation of Related Structures:  
    8J5K, 8J7Z, 8W4O, 8W4P

  • PubMed Abstract: 

    Diatoms are dominant marine algae and contribute around a quarter of global primary productivity, the success of which is largely attributed to their photosynthetic capacity aided by specific fucoxanthin chlorophyll-binding proteins (FCPs) to enhance the blue-green light absorption under water. We purified a photosystem II (PSII)-FCPII supercomplex and a trimeric FCP from Cyclotella meneghiniana (Cm) and solved their structures by cryo-electron microscopy (cryo-EM). The structures reveal detailed organizations of monomeric, dimeric and trimeric FCP antennae, as well as distinct assemblies of Lhcx6_1 and dimeric FCPII-H in PSII core. Each Cm-PSII-FCPII monomer contains an Lhcx6_1, an FCP heterodimer and other three FCP monomers, which form an efficient pigment network for harvesting energy. More diadinoxanthins and diatoxanthins are found in FCPs, which may function to quench excess energy. The trimeric FCP contains more chlorophylls c and fucoxanthins. These diversified FCPs and PSII-FCPII provide a structural basis for efficient light energy harvesting, transfer, and dissipation in C. meneghiniana.


  • Organizational Affiliation

    Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
FCP
A, B, C
181Stephanocyclus meneghinianusMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for O65890 (Cyclotella cryptica)
Explore O65890 
Go to UniProtKB:  O65890
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO65890
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CLA (Subject of Investigation/LOI)
Query on CLA

Download Ideal Coordinates CCD File 
AB [auth C]
CB [auth C]
DA [auth B]
DB [auth C]
EA [auth B]
AB [auth C],
CB [auth C],
DA [auth B],
DB [auth C],
EA [auth B],
FB [auth C],
GA [auth B],
GB [auth C],
IA [auth B],
JA [auth B],
K [auth A],
L [auth A],
LA [auth B],
MA [auth B],
N [auth A],
OA [auth B],
P [auth A],
PA [auth C],
Q [auth A],
S [auth A],
T [auth A],
V [auth A],
XA [auth C],
YA [auth C]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
SQD (Subject of Investigation/LOI)
Query on SQD

Download Ideal Coordinates CCD File 
HB [auth C],
NA [auth B],
U [auth A]
1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
C41 H78 O12 S
RVUUQPKXGDTQPG-JUDHQOGESA-N
A86 (Subject of Investigation/LOI)
Query on A86

Download Ideal Coordinates CCD File 
AA [auth B]
BA [auth B]
CA [auth B]
D [auth A]
E [auth A]
AA [auth B],
BA [auth B],
CA [auth B],
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
J [auth A],
QA [auth C],
RA [auth C],
SA [auth C],
TA [auth C],
UA [auth C],
VA [auth C],
W [auth B],
WA [auth C],
X [auth B],
Y [auth B],
Z [auth B]
(3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate
C42 H58 O6
SJWWTRQNNRNTPU-XJUZQKKNSA-N
KC1 (Subject of Investigation/LOI)
Query on KC1

Download Ideal Coordinates CCD File 
EB [auth C],
KA [auth B],
R [auth A]
Chlorophyll c1
C35 H30 Mg N4 O5
DGNIJJSSARBJSH-QIEHNWLWSA-L
KC2 (Subject of Investigation/LOI)
Query on KC2

Download Ideal Coordinates CCD File 
BB [auth C]
FA [auth B]
HA [auth B]
M [auth A]
O [auth A]
BB [auth C],
FA [auth B],
HA [auth B],
M [auth A],
O [auth A],
ZA [auth C]
Chlorophyll c2
C35 H28 Mg N4 O5
QDRBYWCRXZZVLY-QIEHNWLWSA-L
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.72 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Chinese Academy of SciencesChina--

Revision History  (Full details and data files)

  • Version 1.0: 2023-12-20
    Type: Initial release