5Y6L

A subcomplex crystal structure of human cytosolic aspartyl-tRNA synthetase and heterotetrameric glutathione transferase-homology domains in multi-tRNA synthetase complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.183 

wwPDB Validation   3D Report Full Report


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Literature

A subcomplex crystal structure of human cytosolic aspartyl-tRNA synthetase and heterotetrameric glutathione transferase-homology domains in multi-tRNA synthetase complex

Cho, H.Y.Lee, H.J.Kang, B.S.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Methionine--tRNA ligase, cytoplasmicA232Homo sapiensMutation(s): 1 
Gene Names: MARSMARS1
EC: 6.1.1.10
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Find proteins for P56192 (Homo sapiens)
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PHAROS:  P56192
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation elongation factor 1 epsilon-1B186Homo sapiensMutation(s): 1 
Gene Names: EEF1E1AIMP3P18
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Find proteins for O43324 (Homo sapiens)
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PHAROS:  O43324
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Bifunctional glutamate/proline--tRNA ligaseC175Homo sapiensMutation(s): 3 
Gene Names: EPRSGLNSPARSQARSQPRSPIG32EPRS1
EC: 6.1.1.17 (PDB Primary Data), 6.1.1.15 (UniProt)
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Find proteins for P07814 (Homo sapiens)
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PHAROS:  P07814
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Aminoacyl tRNA synthase complex-interacting multifunctional protein 2D240Homo sapiensMutation(s): 0 
Gene Names: AIMP2JTV1PRO0992
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Aspartate--tRNA ligase, cytoplasmicE521Homo sapiensMutation(s): 0 
Gene Names: DARSPIG40DARS1
EC: 6.1.1.12
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Find proteins for P14868 (Homo sapiens)
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PHAROS:  P14868
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
F [auth A], G [auth B]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.183 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 84.535α = 90
b = 98.413β = 90
c = 125.919γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data collection
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research FoundationKorea, Republic OfNRF-2014M3A6A4062857

Revision History  (Full details and data files)

  • Version 1.0: 2018-08-15
    Type: Initial release