7WFF

Subcomplexes B,M and L in the Cylic electron transfer supercomplex NDH-PSI from Arabidopsis


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Supramolecular assembly of chloroplast NADH dehydrogenase-like complex with photosystem I from Arabidopsis thaliana.

Su, X.Cao, D.Pan, X.Shi, L.Liu, Z.Dall'Osto, L.Bassi, R.Zhang, X.Li, M.

(2022) Mol Plant 15: 454-467

  • DOI: https://doi.org/10.1016/j.molp.2022.01.020
  • Primary Citation of Related Structures:  
    7WFD, 7WFE, 7WFF, 7WFG, 7WG5

  • PubMed Abstract: 

    Cyclic electron transport/flow (CET/CEF) in chloroplasts is a regulatory process essential for the optimization of plant photosynthetic efficiency. A crucial CEF pathway is catalyzed by a membrane-embedded NADH dehydrogenase-like (NDH) complex that contains at least 29 protein subunits and associates with photosystem I (PSI) to form the NDH-PSI supercomplex. Here, we report the 3.9 Å resolution structure of the Arabidopsis thaliana NDH-PSI (AtNDH-PSI) supercomplex. We constructed structural models for 26 AtNDH subunits, among which 11 are unique to chloroplasts and stabilize the core part of the NDH complex. In the supercomplex, one NDH can bind up to two PSI-light-harvesting complex I (PSI-LHCI) complexes at both sides of its membrane arm. Two minor LHCIs, Lhca5 and Lhca6, each present in one PSI-LHCI, interact with NDH and contribute to supercomplex formation and stabilization. Collectively, our study reveals the structural details of the AtNDH-PSI supercomplex assembly and provides a molecular basis for further investigation of the regulatory mechanism of CEF in plants.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, P.R. China; University of Chinese Academy of Sciences, Beijing 100049, P.R. China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic360Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for Q37165 (Arabidopsis thaliana)
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic512Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for A0A1B1W4Z4 (Arabidopsis thaliana)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic120Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase chain 4, chloroplastic506Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for P26288 (Arabidopsis thaliana)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic101Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 5, chloroplastic746Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic176Arabidopsis thalianaMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for Q95695 (Arabidopsis thaliana)
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B 1, chloroplasticH [auth a]461Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B 2, chloroplasticI [auth b]348Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
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Find proteins for Q94AQ8 (Arabidopsis thaliana)
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B 3, chloroplasticJ [auth c]204Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q9LU21 (Arabidopsis thaliana)
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
NDH dependent flow 6K [auth d]161Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B 5, chloroplasticL [auth e]212Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q9FG89 (Arabidopsis thaliana)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of lumenal location 1, chloroplasticM [auth f]238Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for O80634 (Arabidopsis thaliana)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of lumenal location 2, chloroplasticN [auth g]190Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q9XI73 (Arabidopsis thaliana)
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of lumenal location 3, chloroplasticO [auth h]220Arabidopsis thalianaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q9SGH4 (Arabidopsis thaliana)
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of lumenal location 4, chloroplasticP [auth i]217Arabidopsis thalianaMutation(s): 0 
EC: 5.2.1.8
Membrane Entity: Yes 
UniProt
Find proteins for Q9SCY3 (Arabidopsis thaliana)
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform 2 of Photosynthetic NDH subunit of lumenal location 5, chloroplasticQ [auth j]255Arabidopsis thalianaMutation(s): 0 
EC: 5.2.1.8
Membrane Entity: Yes 
UniProt
Find proteins for Q9ASS6 (Arabidopsis thaliana)
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2017YFA0503702
Chinese Academy of SciencesChinaXDB27020106
National Natural Science Foundation of China (NSFC)China31770778
National Natural Science Foundation of China (NSFC)China31930064
National Natural Science Foundation of China (NSFC)China31970264

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-16
    Type: Initial release
  • Version 1.1: 2024-06-26
    Changes: Data collection