7EVT

Crystal structure of the N-terminal degron-truncated human glutamine synthetase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

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This is version 1.1 of the entry. See complete history


Literature

Crystal structure of N-terminal degron-truncated human glutamine synthetase.

Chek, M.F.Kim, S.Y.Mori, T.Kojima, H.Hakoshima, T.

(2021) Acta Crystallogr F Struct Biol Commun 77: 427-434

  • DOI: https://doi.org/10.1107/S2053230X21010748
  • Primary Citation of Related Structures:  
    7EVT

  • PubMed Abstract: 

    Glutamine synthetase (GS) is a decameric enzyme that plays a key role in nitrogen metabolism. Acetylation of the N-terminal degron (N-degron) of GS is essential for ubiquitylation and subsequent GS degradation. The full-length GS structure showed that the N-degron is buried inside the GS decamer and is inaccessible to the acetyltransferase. The structure of N-degron-truncated GS reported here reveals that the N-degron is not essential for GS decamer formation. It is also shown that the N-degron can be exposed to a solvent region through a series of conformational adjustments upon ligand binding. In summary, this study elucidated the dynamic movement of the N-degron and the possible effect of glutamine in enhancing the acetylation process.


  • Organizational Affiliation

    Structural Biology Laboratory, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0192, Japan.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glutamine synthetase
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J
370Homo sapiensMutation(s): 0 
Gene Names: GLULGLNS
EC: 6.3.1.2 (PDB Primary Data), 2.3.1.225 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P15104 (Homo sapiens)
Explore P15104 
Go to UniProtKB:  P15104
PHAROS:  P15104
GTEx:  ENSG00000135821 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15104
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 117.917α = 90
b = 158.866β = 92.796
c = 118.908γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XDSdata scaling
Cootmodel building
PHENIXrefinement
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-11-10
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Refinement description