1WZ2

The crystal structure of Leucyl-tRNA synthetase and tRNA(leucine) complex

• PDB DOI: https://doi.org/10.2210/pdb1WZ2/pdb
• NAKB: 1WZ2

• Classification: Ligase/RNA
• Organism(s): Pyrococcus horikoshii OT3
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-02-21 Released: 2005-09-06 
• Deposition Author(s): Fukunaga, R., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.21 Å
• R-Value Free: 0.305 
• R-Value Work: 0.241 
• R-Value Observed: 0.241 

Literature

The crystal structure of Leucyl-tRNA synthetase and tRNA(leucine) complex

Fukunaga, R., Yokoyama, S.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 285 kDa 
• Atom Count: 19,578 
• Modelled Residue Count: 2,072 
• Deposited Residue Count: 2,110 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Leucyl-tRNA synthetase	C [auth A], D [auth B]	967	Pyrococcus horikoshii OT3	Mutation(s): 0  Gene Names: leuS EC: 6.1.1.4
UniProt
Find proteins for O58698 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58698  Go to UniProtKB:  O58698

Entity ID: 1
Molecule	Chains	Length	Organism	Image
tRNA	A [auth C], B [auth D]	88	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.21 Å
• R-Value Free: 0.305 
• R-Value Work: 0.241 
• R-Value Observed: 0.241 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.546	α = 90
b = 231.127	β = 90
c = 118.181	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-09-06 
Deposition Author(s): Fukunaga, R., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2005-09-06
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references