1IL2

Crystal Structure of the E. coli Aspartyl-tRNA Synthetase:Yeast tRNAasp:aspartyl-Adenylate Complex

Structural Biology Knowledgebase: 1IL2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1IL2

Classification: LIGASE / RNA

Total Structure Weight: 181473.67


Macromolecule Entities
Molecule Chains Length Organism Details
ASPARTYL-TRNA SYNTHETASE A, B 590 Escherichia coli EC#: 6.1.1.12 IUBMB
Gene Name(s): aspS tls b1866 JW1855
Macromolecule Entities
Molecule Chains Length Organism Details
ASPARTYL TRANSFER RNA C, D 75 Saccharomyces cerevisiae

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

A, B ASPARTYL-ADENOSINE-5'-MONOPHOSPHATE
C14 H19 N6 O10 P
QPBSGQWTJLPZNF-VWJPMABRSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B, C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 5 Unique
ID Chains Type Formula 2D Diagram Parent
PSU
Query on PSU
C, D RNA LINKING C9 H13 N2 O9 P U
H2U
Query on H2U
C, D RNA LINKING C9 H15 N2 O9 P U
1MG
Query on 1MG
C, D RNA LINKING C11 H16 N5 O8 P G
5MC
Query on 5MC
C, D RNA LINKING C10 H16 N3 O8 P C
5MU
Query on 5MU
C, D RNA LINKING C10 H15 N2 O9 P U

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.204
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 75.80 α = 90.00
b = 222.80 β = 111.80
c = 80.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-05-07
  • Released Date: 2001-09-28
  • Deposition author(s): Moulinier, L., Eiler, S., Eriani, G., Gangloff, J., Thierry, J.C., Gabriel, K., McClain, W.H., Moras, D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4