5BMU

The crystal structure of the GST-like domains complex of AIMP3-EPRS mutant C92SC105SC123S


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.170 
  • R-Value Work: 0.138 
  • R-Value Observed: 0.139 

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This is version 1.2 of the entry. See complete history


Literature

Assembly of Multi-tRNA Synthetase Complex via Heterotetrameric Glutathione Transferase-homology Domains

Cho, H.Y.Maeng, S.J.Cho, H.J.Choi, Y.S.Chung, J.M.Lee, S.Kim, H.K.Kim, J.H.Eom, C.Y.Kim, Y.G.Guo, M.Jung, H.S.Kang, B.S.Kim, S.

(2015) J Biol Chem 290: 29313-29328

  • DOI: 10.1074/jbc.M115.690867
  • Primary Citation of Related Structures:  
    4BVX, 5A34, 5BMU

  • PubMed Abstract: 
  • Many multicomponent protein complexes mediating diverse cellular processes are assembled through scaffolds with specialized protein interaction modules. The multi-tRNA synthetase complex (MSC), consisting of nine different aminoacyl-tRNA synthetases and three non-enzymatic factors (AIMP1-3), serves as a hub for many signaling pathways in addition to its role in protein synthesis ...

    Many multicomponent protein complexes mediating diverse cellular processes are assembled through scaffolds with specialized protein interaction modules. The multi-tRNA synthetase complex (MSC), consisting of nine different aminoacyl-tRNA synthetases and three non-enzymatic factors (AIMP1-3), serves as a hub for many signaling pathways in addition to its role in protein synthesis. However, the assembly process and structural arrangement of the MSC components are not well understood. Here we show the heterotetrameric complex structure of the glutathione transferase (GST) domains shared among the four MSC components, methionyl-tRNA synthetase (MRS), glutaminyl-prolyl-tRNA synthetase (EPRS), AIMP2 and AIMP3. The MRS-AIMP3 and EPRS-AIMP2 using interface 1 are bridged via interface 2 of AIMP3 and EPRS to generate a unique linear complex of MRS-AIMP3:EPRS-AIMP2 at the molar ratio of (1:1):(1:1). Interestingly, the affinity at interface 2 of AIMP3:EPRS can be varied depending on the occupancy of interface 1, suggesting the dynamic nature of the linear GST tetramer. The four components are optimally arranged for maximal accommodation of additional domains and proteins. These characteristics suggest the GST tetramer as a unique and dynamic structural platform from which the MSC components are assembled. Considering prevalence of the GST-like domains, this tetramer can also provide a tool for the communication of the MSC with other GST-containing cellular factors.


    Organizational Affiliation

    the Department of Molecular Medicine and Biopharmaceutical Sciences, Medicinal Bioconvergence Research Center, Graduate School of Convergence Technology, Seoul National University, Seoul 151-742, Korea, the The National Center for Drug Screening, Shanghai Institute of Materia Medica, Shanghai 201203, China sungkim@snu.ac.kr.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation elongation factor 1 epsilon-1A, C, E, G171Homo sapiensMutation(s): 0 
Gene Names: EEF1E1AIMP3P18
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Find proteins for O43324 (Homo sapiens)
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Go to UniProtKB:  O43324
PHAROS:  O43324
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Glutamate--tRNA ligaseB, D, F, H175Homo sapiensMutation(s): 3 
Gene Names: EPRSEPRS1GLNSPARSQARSQPRSPIG32
EC: 6.1.1.17 (PDB Primary Data), 6.1.1.15 (UniProt)
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Find proteins for P07814 (Homo sapiens)
Explore P07814 
Go to UniProtKB:  P07814
PHAROS:  P07814
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.170 
  • R-Value Work: 0.138 
  • R-Value Observed: 0.139 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.063α = 90
b = 92.063β = 90
c = 185.948γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
Cootmodel building

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2015-05-23 
  • Released Date: 2015-10-21 
  • Deposition Author(s): Cho, H.J., Kang, B.S.

Revision History  (Full details and data files)

  • Version 1.0: 2015-10-21
    Type: Initial release
  • Version 1.1: 2015-10-28
    Changes: Database references
  • Version 1.2: 2015-12-16
    Changes: Database references