8ELF

Structure of Get3d, a homolog of Get3, from Arabidopsis thaliana


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.213 
  • R-Value Observed: 0.216 

Starting Model: experimental
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This is version 1.2 of the entry. See complete history


Literature

Structures of Get3d reveal a distinct architecture associated with the emergence of photosynthesis.

Barlow, A.N.Manu, M.S.Saladi, S.M.Tarr, P.T.Yadav, Y.Thinn, A.M.M.Zhu, Y.Laganowsky, A.D.Clemons Jr., W.M.Ramasamy, S.

(2023) J Biol Chem 299: 104752-104752

  • DOI: https://doi.org/10.1016/j.jbc.2023.104752
  • Primary Citation of Related Structures:  
    8EGK, 8ELF

  • PubMed Abstract: 

    Homologs of the protein Get3 have been identified in all domains yet remain to be fully characterized. In the eukaryotic cytoplasm, Get3 delivers tail-anchored (TA) integral membrane proteins, defined by a single transmembrane helix at their C terminus, to the endoplasmic reticulum. While most eukaryotes have a single Get3 gene, plants are notable for having multiple Get3 paralogs. Get3d is conserved across land plants and photosynthetic bacteria and includes a distinctive C-terminal α-crystallin domain. After tracing the evolutionary origin of Get3d, we solve the Arabidopsis thaliana Get3d crystal structure, identify its localization to the chloroplast, and provide evidence for a role in TA protein binding. The structure is identical to that of a cyanobacterial Get3 homolog, which is further refined here. Distinct features of Get3d include an incomplete active site, a "closed" conformation in the apo-state, and a hydrophobic chamber. Both homologs have ATPase activity and are capable of binding TA proteins, supporting a potential role in TA protein targeting. Get3d is first found with the development of photosynthesis and conserved across 1.2 billion years into the chloroplasts of higher plants across the evolution of photosynthesis suggesting a role in the homeostasis of photosynthetic machinery.


  • Organizational Affiliation

    Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized protein At1g26090, chloroplastic
A, B
407Arabidopsis thalianaMutation(s): 0 
Gene Names: At1g26090F14G11.6F28B23.23
UniProt
Find proteins for Q6DYE4 (Arabidopsis thaliana)
Explore Q6DYE4 
Go to UniProtKB:  Q6DYE4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6DYE4
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.213 
  • R-Value Observed: 0.216 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.251α = 90
b = 67.05β = 97.81
c = 99.398γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing
Cootmodel building

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/Office of the DirectorUnited StatesR01GM097572
National Institutes of Health/Office of the DirectorUnited StatesR01GM125063
National Institutes of Health/Office of the DirectorUnited StatesDP1GM105385
Weston Havens FoundationUnited States--
National Science Foundation (NSF, United States)United States11444469
National Institutes of Health/Office of the DirectorUnited StatesT32GM07616
Department of Biotechnology (DBT, India)IndiaBT/PR11737/BPA/118/32/2014

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-03
    Type: Initial release
  • Version 1.1: 2023-06-28
    Changes: Database references
  • Version 1.2: 2023-10-25
    Changes: Data collection, Refinement description