5YVF

Crystal structure of BFA1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.223 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Nucleus-Encoded Protein BFA1 Promotes Efficient Assembly of the Chloroplast ATP Synthase Coupling Factor 1.

Zhang, L.Pu, H.Duan, Z.Li, Y.Liu, B.Zhang, Q.Li, W.Rochaix, J.D.Liu, L.Peng, L.

(2018) Plant Cell 30: 1770-1788

  • DOI: https://doi.org/10.1105/tpc.18.00075
  • Primary Citation of Related Structures:  
    5YVF

  • PubMed Abstract: 

    F-type ATP synthases produce nearly all of the ATP found in cells. The catalytic module F 1 commonly comprises an α 3 β 3 hexamer surrounding a γ/ε stalk. However, it is unclear how these subunits assemble to form a catalytic motor. In this work, we identified and characterized a chloroplast protein that interacts with the CF 1 β, γ, and ε subunits of the chloroplast ATP synthase and is required for assembly of its F 1 module. We named this protein BIOGENESIS FACTOR REQUIRED FOR ATP SYNTHASE1 (BFA1) and determined its crystal structure at 2.8-Å resolution. BFA1 is comprised primarily of two interacting β-barrels that are oriented nearly perpendicularly to each other. The contact region between BFA1 and the CF 1 β and γ subunits was further mapped by yeast two-hybrid assays. An in silico molecular docking analysis was performed and revealed close fitting contact sites without steric conflicts between BFA1 and CF 1 β/γ. We propose that BFA1 acts mainly as a scaffold protein promoting the association of a CF 1 α/β heterodimer with CF 1 γ. The subsequent assembly of other CF 1 α/β heterodimers may shift the position of the CF 1 γ subunit to complete assembly of the CF 1 module. This CF 1 assembly process is likely to be valid for other F-type ATP synthases, as their structures are highly conserved.


  • Organizational Affiliation

    College of Life and Environmental Sciences, Shanghai Normal University, Shanghai 200234, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BFA1
A, B, C, D
370Arabidopsis thalianaMutation(s): 0 
Gene Names: At3g29185AXX17_At3g32040
UniProt
Find proteins for F4J1U2 (Arabidopsis thaliana)
Explore F4J1U2 
Go to UniProtKB:  F4J1U2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF4J1U2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.223 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.925α = 90
b = 134.628β = 90
c = 149.477γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
HKL-3000data reduction
SHELXDphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-08-08
    Type: Initial release
  • Version 1.1: 2018-09-26
    Changes: Data collection, Database references
  • Version 1.2: 2024-03-27
    Changes: Data collection, Database references