5ZG8 | pdb_00005zg8

Crystal Structure of TtNRS

• PDB DOI: https://doi.org/10.2210/pdb5ZG8/pdb

• Classification: LIGASE
• Organism(s): Thermus thermophilus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-03-08 Released: 2019-03-13 
• Deposition Author(s): Mutharasappan, N., Jain, V., Sharma, A., Manickam, Y., Jeyaraman, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.209 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.155 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.158 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of TtNRS

Mutharasappan, N., Jain, V., Sharma, A., Manickam, Y., Jeyaraman, J.

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 Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 50.86 kDa 
• Atom Count: 3,627 
• Modeled Residue Count: 422 
• Deposited Residue Count: 438 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Asparagine--tRNA ligase	A	438	Thermus thermophilus	Mutation(s): 0  EC: 6.1.1.22
UniProt
Find proteins for P54263 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore P54263  Go to UniProtKB:  P54263

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.209 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.155 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.158 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.294	α = 90
b = 67.294	β = 90
c = 189.117	γ = 120

Software Package:

Software Name	Purpose
AMoRE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-03-13 
Deposition Author(s): Mutharasappan, N., Jain, V., Sharma, A., Manickam, Y., Jeyaraman, J.

Revision History  

• Version 1.0: 2019-03-13
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description