5ON2

Quaternary complex of mutant T252A of E. coli leucyl-tRNA synthetase with tRNA(leu), leucyl-adenylate analogue, and post-transfer editing analogue of norvaline in the aminoacylation conformation


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.226

Literature

Macromolecules
Sequence Display for 5ON2

Classification: TRANSLATION

Total Structure Weight: 256906.45


Macromolecule Entities
Molecule Chains Length Organism Details
Leucine--tRNA ligase A, D 880 Escherichia coli EC#: 6.1.1.4 IUBMB
Mutation: T252A
Gene Name(s): leuS b0642 JW0637
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
tRNA(leu) B, E 87 Escherichia coli

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LSS
Query on LSS

A, D 5'-O-(L-leucylsulfamoyl)adenosine
5-O-N-LEUCYL-SULFAMOYLADENOSINE (Synonym)
C16 H25 N7 O7 S
XFEDFDTWJLGMBO-LEJQEAHTSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
VRT
Query on VRT

A, D 2'-(L-NORVALYL)AMINO-2'-DEOXYADENOSINE
C15 H23 N7 O4
NWKNSTYARDJRIZ-IEUWZBGXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B, E MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.226
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 159.65 α = 90.00
b = 70.62 β = 104.52
c = 230.34 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-08-02
  • Released Date: 2017-11-15
  • Deposition author(s): Palencia, A., Cusack, S.

Revision History

  • Version 1_0: 2017-11-15

    Type: Initial release