4HLC

Sulfonylpiperidines as Novel, Antibacterial Inhibitors of Gram-Positive Thymidylate Kinase (TMK): Compound 5

Structural Biology Knowledgebase: 4HLC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.179

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4HLC

Classification: transferase / transferase inhibitor

Total Structure Weight: 47908.63

Macromolecule Entities
Molecule Chains Length Organism Details
Thymidylate kinase A, B 205 Staphylococcus aureus EC#: 2.7.4.9 IUBMB
Fragment: TMK
Gene Name(s): tmk SAR0483

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
T05
Query on T05

A, B 4-{[(3S)-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin- 1(2H)-yl)piperidin-1-yl]sulfonyl}-2-(3-methylphenoxy)benzoic acid
C24 H25 N3 O7 S
HYOKWKXYBOKTDO-KRWDZBQOSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
T05 N/A in BindingDB
IC50: 174 nM  BindingMOAD
IC50: 174 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.179
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.20 α = 90.00
b = 90.97 β = 102.85
c = 48.33 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-10-16
  • Released Date: 2012-10-31
  • Deposition author(s): Boriack-Sjodin, A., Olivier, N.

Revision History

  • 2013-01-02
    Type: Citation | Details: Citation update