7K86

Crystal Structure of Glutamyl-tRNA synthetase (gltX) from Stenotrophomonas maltophilia

• PDB DOI: https://doi.org/10.2210/pdb7K86/pdb

• Classification: LIGASE
• Organism(s): Stenotrophomonas maltophilia K279a
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-09-25 Released: 2020-10-07 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.228 
• R-Value Work: 0.182 
• R-Value Observed: 0.183 

Literature

Crystal Structure of Glutamyl-tRNA synthetase (gltX) from Stenotrophomonas maltophilia

Dranow, D.M., Davies, D.R., Horanyi, P.S., Lorimer, D.D., Edwards, T.E.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

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

Macromolecule Content

• Total Structure Weight: 106.47 kDa 
• Atom Count: 7,597 
• Modelled Residue Count: 923 
• Deposited Residue Count: 950 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamate--tRNA ligase	A, B	475	Stenotrophomonas maltophilia K279a	Mutation(s): 0  Gene Names: gltX, Smlt1441 EC: 6.1.1.17
UniProt
Find proteins for B2FHI7 (Stenotrophomonas maltophilia (strain K279a)) Explore B2FHI7  Go to UniProtKB:  B2FHI7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	D [auth A], E [auth A], F [auth A], H [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
ACT	C [auth A], G [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.228 
• R-Value Work: 0.182 
• R-Value Observed: 0.183 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/m37k86

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.4	α = 90
b = 69.11	β = 110.06
c = 103.82	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MoRDa	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-10-07 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2020-10-07
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Database references, Refinement description