5CHE

Crystal structure of Arabidopsis glutamyl-tRNA reductase in complex with its regulatory proteins


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.223 
  • R-Value Observed: 0.226 

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This is version 1.2 of the entry. See complete history


Literature

The Arabidopsis glutamyl-tRNA reductase (GluTR) forms a ternary complex with FLU and GluTR-binding protein

Fang, Y.Zhao, S.Zhang, F.Zhao, A.Zhang, W.Zhang, M.Liu, L.

(2016) Sci Rep 6: 19756-19756

  • DOI: https://doi.org/10.1038/srep19756
  • Primary Citation of Related Structures:  
    5CHE

  • PubMed Abstract: 

    Tetrapyrrole biosynthesis is an essential and tightly regulated process, and glutamyl-tRNA reductase (GluTR) is a key target for multiple regulatory factors at the post-translational level. By binding to the thylakoid membrane protein FLUORESCENT (FLU) or the soluble stromal GluTR-binding protein (GBP), the activity of GluTR is down- or up-regulated. Here, we reconstructed a ternary complex composed of the C-terminal tetratricopepetide-repeat domain of FLU, GBP, and GluTR, crystallized and solved the structure of the complex at 3.2 Å. The overall structure resembles the shape of merged two binary complexes as previously reported, and shows a large conformational change within GluTR. We also demonstrated that GluTR binds tightly with GBP but does not bind to GSAM under the same condition. These findings allow us to suggest a biological role of the ternary complex for the regulation of plant GluTR.


  • Organizational Affiliation

    Key Laboratory of Photobiology, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glutamyl-tRNA reductase 1, chloroplastic
A, B
472Arabidopsis thalianaMutation(s): 0 
Gene Names: HEMA1HEMAAt1g58290F19C14.9
EC: 1.2.1.70
UniProt
Find proteins for P42804 (Arabidopsis thaliana)
Explore P42804 
Go to UniProtKB:  P42804
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UniProt GroupP42804
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Glutamyl-tRNA reductase-binding protein, chloroplastic
C, D
310Arabidopsis thalianaMutation(s): 0 
Gene Names: GLUTRBPPGR7At3g21200MXL8.5
UniProt
Find proteins for Q9LU39 (Arabidopsis thaliana)
Explore Q9LU39 
Go to UniProtKB:  Q9LU39
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UniProt GroupQ9LU39
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Protein FLUORESCENT IN BLUE LIGHT, chloroplastic
E, F
159Arabidopsis thalianaMutation(s): 0 
Gene Names: FLUAt3g14110MAG2.7
UniProt
Find proteins for Q940U6 (Arabidopsis thaliana)
Explore Q940U6 
Go to UniProtKB:  Q940U6
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UniProt GroupQ940U6
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.223 
  • R-Value Observed: 0.226 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 216.994α = 90
b = 53.211β = 108.36
c = 203.763γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERmodel building
SCALEPACKdata scaling
HKL-2000data collection
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-02-03
    Type: Initial release
  • Version 1.1: 2017-09-27
    Changes: Data collection, Derived calculations
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Refinement description