7EU3

Chloroplast NDH complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Architecture of the chloroplast PSI-NDH supercomplex in Hordeum vulgare.

Shen, L.Tang, K.Wang, W.Wang, C.Wu, H.Mao, Z.An, S.Chang, S.Kuang, T.Shen, J.R.Han, G.Zhang, X.

(2022) Nature 601: 649-654

  • DOI: https://doi.org/10.1038/s41586-021-04277-6
  • Primary Citation of Related Structures:  
    7EU3, 7EW6, 7EWK, 7F9O

  • PubMed Abstract: 

    The chloroplast NADH dehydrogenase-like (NDH) complex is composed of at least 29 subunits and has an important role in mediating photosystem I (PSI) cyclic electron transport (CET) 1-3 . The NDH complex associates with PSI to form the PSI-NDH supercomplex and fulfil its function. Here, we report cryo-electron microscopy structures of a PSI-NDH supercomplex from barley (Hordeum vulgare). The structures reveal that PSI-NDH is composed of two copies of the PSI-light-harvesting complex I (LHCI) subcomplex and one NDH complex. Two monomeric LHCI proteins, Lhca5 and Lhca6, mediate the binding of two PSI complexes to NDH. Ten plant chloroplast-specific NDH subunits are presented and their exact positions as well as their interactions with other subunits in NDH are elucidated. In all, this study provides a structural basis for further investigations on the functions and regulation of PSI-NDH-dependent CET.


  • 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
NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic346Hordeum vulgareMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for P92432 (Hordeum vulgare)
Explore P92432 
Go to UniProtKB:  P92432
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP92432
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic483Hordeum vulgare subsp. spontaneumMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for P0CC72 (Hordeum vulgare)
Explore P0CC72 
Go to UniProtKB:  P0CC72
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0CC72
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic117Hordeum vulgare subsp. spontaneumMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for A1E9J6 (Hordeum vulgare)
Explore A1E9J6 
Go to UniProtKB:  A1E9J6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA1E9J6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase chain 4, chloroplastic499Hordeum vulgare subsp. spontaneumMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for O03060 (Hordeum vulgare)
Explore O03060 
Go to UniProtKB:  O03060
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO03060
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic100Hordeum vulgareMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for P69378 (Hordeum vulgare)
Explore P69378 
Go to UniProtKB:  P69378
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP69378
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit F777Hordeum vulgare subsp. spontaneumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A7T7JN26 (Hordeum vulgare)
Explore A0A7T7JN26 
Go to UniProtKB:  A0A7T7JN26
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7T7JN26
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic176Hordeum vulgare subsp. spontaneumMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for O98693 (Hordeum vulgare)
Explore O98693 
Go to UniProtKB:  O98693
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO98693
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit H, chloroplastic383Hordeum vulgare subsp. spontaneumMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for O98691 (Hordeum vulgare)
Explore O98691 
Go to UniProtKB:  O98691
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO98691
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit I, chloroplastic165Hordeum vulgareMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for O98692 (Hordeum vulgare)
Explore O98692 
Go to UniProtKB:  O98692
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO98692
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit J159Hordeum vulgare subsp. spontaneumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q7GT16 (Hordeum vulgare)
Explore Q7GT16 
Go to UniProtKB:  Q7GT16
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7GT16
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit K, chloroplastic245Hordeum vulgare subsp. spontaneumMutation(s): 0 
EC: 7.1.1
Membrane Entity: Yes 
UniProt
Find proteins for S4Z232 (Hordeum vulgare subsp. spontaneum)
Explore S4Z232 
Go to UniProtKB:  S4Z232
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupS4Z232
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit L192Hordeum vulgare subsp. spontaneumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for F2CUR7 (Hordeum vulgare subsp. vulgare)
Explore F2CUR7 
Go to UniProtKB:  F2CUR7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2CUR7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit M213Hordeum vulgare subsp. spontaneumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for F2D138 (Hordeum vulgare subsp. vulgare)
Explore F2D138 
Go to UniProtKB:  F2D138
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2D138
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H-quinone oxidoreductase subunit N233Hordeum vulgare subsp. spontaneumMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Unidentified stromal proteinO [auth T]61Hordeum vulgare subsp. spontaneumMutation(s): 0 
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex L1P [auth 1]154Hordeum vulgare subsp. spontaneumMutation(s): 0 
UniProt
Find proteins for A0A8I6Y1Z8 (Hordeum vulgare subsp. vulgare)
Explore A0A8I6Y1Z8 
Go to UniProtKB:  A0A8I6Y1Z8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A8I6Y1Z8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex L2Q [auth 2]216Hordeum vulgare subsp. spontaneumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for F2CTW7 (Hordeum vulgare subsp. vulgare)
Explore F2CTW7 
Go to UniProtKB:  F2CTW7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2CTW7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex L3R [auth 3]227Hordeum vulgare subsp. spontaneumMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex L4S [auth 4]130Hordeum vulgare subsp. spontaneumMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex L5T [auth 5]243Hordeum vulgare subsp. spontaneumMutation(s): 0 
UniProt
Find proteins for F2CTD7 (Hordeum vulgare subsp. vulgare)
Explore F2CTD7 
Go to UniProtKB:  F2CTD7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2CTD7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B1U [auth 6]469Hordeum vulgare subsp. spontaneumMutation(s): 0 
UniProt
Find proteins for F2D3G1 (Hordeum vulgare subsp. vulgare)
Explore F2D3G1 
Go to UniProtKB:  F2D3G1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2D3G1
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B2V [auth 7]361Hordeum vulgare subsp. spontaneumMutation(s): 0 
UniProt
Find proteins for F2D932 (Hordeum vulgare subsp. vulgare)
Explore F2D932 
Go to UniProtKB:  F2D932
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2D932
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B3W [auth 8]119Hordeum vulgare subsp. spontaneumMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B4X [auth 9]83Hordeum vulgare subsp. spontaneumMutation(s): 0 
UniProt
Find proteins for F2CPQ4 (Hordeum vulgare subsp. vulgare)
Explore F2CPQ4 
Go to UniProtKB:  F2CPQ4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2CPQ4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
Photosynthetic NDH subunit of subcomplex B5Y [auth 0]155Hordeum vulgare subsp. spontaneumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for F2DWH9 (Hordeum vulgare subsp. vulgare)
Explore F2DWH9 
Go to UniProtKB:  F2DWH9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF2DWH9
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 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 SciencesChinaQYZDY-SSW-SMC003

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-29
    Type: Initial release
  • Version 1.1: 2022-02-09
    Changes: Database references