3DQQ

The crystal structure of the putative tRNA synthase from Salmonella typhimurium LT2

• PDB DOI: https://doi.org/10.2210/pdb3DQQ/pdb

• Classification: structural genomics, unknown function
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-07-09 Released: 2008-07-22 
• Deposition Author(s): Zhang, R., Gu, M., Zhou, M., Anderson, W., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.210 
• R-Value Work: 0.188 
• R-Value Observed: 0.189 

Literature

The crystal structure of the putative tRNA synthase from Salmonella typhimurium LT2

Zhang, R., Gu, M., Zhou, M., Anderson, W., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global 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: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 89.77 kDa 
• Atom Count: 6,264 
• Modelled Residue Count: 831 
• Deposited Residue Count: 842 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative tRNA synthase	A, B	421	Salmonella enterica subsp. enterica serovar Typhimurium	Mutation(s): 0  Gene Names: ygbK, STM2917 EC: 2.7.1.217
UniProt
Find proteins for Q8ZMG5 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore Q8ZMG5  Go to UniProtKB:  Q8ZMG5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.210 
• R-Value Work: 0.188 
• R-Value Observed: 0.189 
• Space Group: P 6₄ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 254.541	α = 90
b = 254.541	β = 90
c = 94.459	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-22 
Deposition Author(s): Zhang, R., Gu, M., Zhou, M., Anderson, W., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2008-07-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations