Pyrrolopyrimidine inhibitors of dna gyrase b and topoisomerase iv, part i: structure guided discovery and optimization of dual targeting agents with potent, broad-spectrum enzymatic activity.

Structural Biology Knowledgebase: 4HYM SBKB.org

Experimental Data Snapshot

  • Resolution: 1.9 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.238

wwPDB Validation Full Report


Sequence Display for 4HYM

Classification: Isomerase / Isomerase inhibitor

Total Structure Weight: 88345.41

Macromolecule Entities
Molecule Chains Length Organism Details
Topoisomerase IV, subunit B A, B 390 Francisella tularensis EC#: IUBMB
Mutation: L258P
Gene Name(s): parE FTL_1726

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

A 7-({4-[(3R)-3-aminopyrrolidin-1-yl]-5-chloro- 6-ethyl-7H-pyrrolo[2,3-d]pyrimidin-2-yl}sulfanyl)pyrido[2,3- b]pyrazin-2(1H)-one
C19 H19 Cl N8 O S
Ligand Explorer
Binding Pocket (JSmol)
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CJC N/A in BindingDB
Ki: 6 nM  BindingMOAD
Ki: 6 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Resolution: 1.9 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.238
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 44.16 α = 90.00
b = 130.28 β = 98.12
c = 80.27 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

  • Deposited Date: 2012-11-13
  • Released Date: 2013-02-13
  • Deposition author(s): Bensen, D.C., Creighton, C.J., Kwan, B., Tari, L.W.

Revision History

  • 2013-02-27
    Type: Citation | Details: Citation update