3A74

Lysyl-tRNA synthetase from Bacillus stearothermophilus complexed with Diadenosine Tetraphosphate (AP4A)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 3A74

Classification: LIGASE

Total Structure Weight: 233659.27

Macromolecule Entities
Molecule Chains Length Organism Details
Lysyl-tRNA synthetase A, B, C, D 493 Geobacillus stearothermophilus EC#: 6.1.1.6 IUBMB
Gene Name(s): lysS
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
B4P
Query on B4P

A, B, C, D BIS(ADENOSINE)-5'-TETRAPHOSPHATE
C20 H28 N10 O19 P4
YOAHKNVSNCMZGQ-XPWFQUROSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LYN
Query on LYN

A, B, C, D 2,6-DIAMINO-HEXANOIC ACID AMIDE
C6 H16 N3 O
HKXLAGBDJVHRQG-YFKPBYRVSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D 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: 1.8 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.207
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 80.18 α = 90.00
b = 85.08 β = 90.01
c = 151.76 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-09-13
  • Released Date: 2010-09-22
  • Deposition author(s): Sakurama, H., Takita, T., Mikami, B., Itoh, T., Yasukawa, K., Inouye, K.

Revision History

  • Version 1_0: 2010-09-22

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance