5A5H

The crystal structure of the GST-like domains complex of EPRS C92SC105SC123S mutant-AIMP2

• PDB DOI: https://doi.org/10.2210/pdb5A5H/pdb

• Classification: TRANSLATION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli B, Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2015-06-18 Released: 2016-06-29 
• Deposition Author(s): Cho, H.Y., Kang, B.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free: 0.227 
• R-Value Work: 0.172 
• R-Value Observed: 0.174 

Literature

The Crystal Structure of the Gst-Like Domains Complex of Eprs C92Sc105Sc123S Mutant-Aimp2

Cho, H.Y., Kang, B.S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 184.78 kDa 
• Atom Count: 11,755 
• Modelled Residue Count: 1,480 
• Deposited Residue Count: 1,660 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BIFUNCTIONAL GLUTAMATE/PROLINE--TRNA LIGASE	A, C, E, G	175	Homo sapiens	Mutation(s): 3  EC: 6.1.1.15 (PDB Primary Data), 6.1.1.17 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P07814 (Homo sapiens) Explore P07814  Go to UniProtKB:  P07814
PHAROS:  P07814 GTEx:  ENSG00000136628

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
AMINOACYL TRNA SYNTHASE COMPLEX-INTERACTING MULTIFUNCTIONA L PROTEIN 2	B, D, F, H	240	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q13155 (Homo sapiens) Explore Q13155  Go to UniProtKB:  Q13155
PHAROS:  Q13155 GTEx:  ENSG00000106305

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, C, E, G	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free: 0.227 
• R-Value Work: 0.172 
• R-Value Observed: 0.174 
• Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.687	α = 90
b = 112.793	β = 90
c = 181.249	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-06-29 
Deposition Author(s): Cho, H.Y., Kang, B.S.

Revision History  

• Version 1.0: 2016-06-29
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description