3TY8

Crystal Structure of C. Thermocellum PNKP Ligase Domain Apo Form

Structural Biology Knowledgebase: 3TY8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.195

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3TY8

Classification: TRANSFERASE

Total Structure Weight: 95672.06

Macromolecule Entities
Molecule Chains Length Organism Details
Polynucleotide 2',3'-cyclic phosphate phosphodiesterase / polynucleotide 5'-hydroxyl-kinase / polynucleotide 3'-phosphatase A, B 413 Ruminiclostridium thermocellum EC#: 6.5.1.3 IUBMB
Fragment: Nucleotide Ligase
Gene Name(s): Cthe_2768

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

A, B D(-)-TARTARIC ACID
C4 H6 O6
FEWJPZIEWOKRBE-LWMBPPNESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-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: 0.242
  • R-Value Work: 0.195
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 60.14 α = 90.00
b = 94.16 β = 95.78
c = 76.03 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-09-23
  • Released Date: 2012-01-25
  • Deposition author(s): Smith, P., Wang, L., Shuman, S.

Revision History

  • 2012-02-29
    Type: Citation | Details: Citation update
  • 2012-02-22
    Type: Citation | Details: Citation update