2HL2

Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with an analog of seryladenylate

Structural Biology Knowledgebase: 2HL2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.213

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2HL2

Classification: LIGASE

Total Structure Weight: 33430.66

Macromolecule Entities
Molecule Chains Length Organism Details
Threonyl-tRNA synthetase A, B 143 Pyrococcus abyssi EC#: 6.1.1.3 IUBMB
Fragment: editing domain (residues 1-143)
Gene Name(s): thrS PYRAB13430 PAB1490
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SSA
Query on SSA

A, B 5'-O-(N-(L-SERYL)-SULFAMOYL)ADENOSINE
C13 H19 N7 O8 S
HQXFJGONGJPTLZ-YTMOPEAISA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.213
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 39.65 α = 90.00
b = 67.36 β = 90.00
c = 98.59 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-07-06
  • Released Date: 2006-08-29
  • Deposition author(s): Hussain, T., Kruparani, S.P., Pal, B., Sankaranarayanan, R.

Revision History

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