8JPV | pdb_00008jpv

Glutamyl-tRNA synthetase from Methylacidiphilum fumariolicum

• PDB DOI: https://doi.org/10.2210/pdb8JPV/pdb

• Classification: LIGASE
• Organism(s): Candidatus Methylacidiphilum fumarolicum
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2023-06-13 Released: 2024-06-19 
• Deposition Author(s): Dev, A., Basu, G.
• Funding Organization(s): Department of Science & Technology (DST, India)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.51 Å
• R-Value Free: 
  0.266 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.212 (Depositor) 

Starting Model: experimental

Literature

Glutamyl-tRNA synthetase from Methylacidiphilum fumariolicum

Dev, A., Basu, G.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 51.79 kDa 
• Atom Count: 3,672 
• Modeled Residue Count: 440 
• Deposited Residue Count: 448 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamate--tRNA ligase	A	448	Candidatus Methylacidiphilum fumarolicum	Mutation(s): 0  Gene Names: gltX EC: 6.1.1.17
UniProt
Find proteins for I0JVL9 (Methylacidiphilum fumariolicum (strain SolV)) Explore I0JVL9  Go to UniProtKB:  I0JVL9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.51 Å
• R-Value Free:  0.266 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.212 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.31	α = 90
b = 62.54	β = 90
c = 190.28	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-19 
Deposition Author(s): Dev, A., Basu, G.

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Funding Organization	Location	Grant Number
Department of Science & Technology (DST, India)	India	--

Revision History  

• Version 1.0: 2024-06-19
  Type: Initial release