4JST

Structure of Clostridium thermocellum polynucleotide kinase bound to UTP

Structural Biology Knowledgebase: 4JST SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.170

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JST

Classification: Transferase

Total Structure Weight: 40362.28

Macromolecule Entities
Molecule Chains Length Organism Details
Metallophosphoesterase A, B 171 Ruminiclostridium thermocellum EC#: 2.7.1.78 IUBMB
Mutation: V44M, L137M

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

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NA
Query on NA

B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
UTP
Query on UTP

A, B URIDINE 5'-TRIPHOSPHATE
C9 H15 N2 O15 P3
PGAVKCOVUIYSFO-XVFCMESISA-N
Ligand Explorer
 
JSmol
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.170
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 45.31 α = 90.00
b = 66.78 β = 90.00
c = 119.55 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-22
  • Released Date: 2013-08-28
  • Deposition author(s): Das, U., Wang, L.K., Smith, P., Shuman, S.

Revision History

  • 2013-12-18
    Type: Citation | Details: Citation update