4KQV

Topoisomerase iv atp binding domain of francisella tularensis in complex with a small molecule inhibitor

• PDB DOI: https://doi.org/10.2210/pdb4KQV/pdb

• Classification: ISOMERASE
• Organism(s): Francisella tularensis subsp. holarctica LVS
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2013-05-15 Released: 2014-01-15 
• Deposition Author(s): Bensen, D.C., Akers-Rodriguez, S., Lam, T., Tari, L.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.38 Å
• R-Value Free: 0.299 
• R-Value Work: 0.255 
• R-Value Observed: 0.257 

Starting Model: experimental

Literature

A new class of type iia topoisomerase inhibitors with broad-spectrum antibacterial activity

Tari, L.W., Bensen, D.C., Finn, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 89.79 kDa 
• Atom Count: 4,586 
• Modelled Residue Count: 551 
• Deposited Residue Count: 780 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Topoisomerase IV, subunit B	A, B	390	Francisella tularensis subsp. holarctica LVS	Mutation(s): 1  Gene Names: DNA TOPOISOMERASE IV SUBUNIT B PARE, FTL_1726 EC: 5.99.1.3 (PDB Primary Data), 5.6.2.2 (UniProt)
UniProt
Find proteins for A0A0J9WZF0 (Francisella tularensis subsp. holarctica (strain LVS)) Explore A0A0J9WZF0  Go to UniProtKB:  A0A0J9WZF0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DOO	E [auth A], L [auth B]	6-fluoro-4-[(3aR,6aR)-hexahydropyrrolo[3,4-b]pyrrol-5(1H)-yl]-N-methyl-2-[(2-methylpyrimidin-5-yl)oxy]-9H-pyrimido[4,5-b]indol-8-amine C22 H23 F N8 O ACMIJDVJWLMBCX-PXAZEXFGSA-N
IOD	C [auth A], D [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth B], K [auth B]	IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.38 Å
• R-Value Free: 0.299 
• R-Value Work: 0.255 
• R-Value Observed: 0.257 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.2	α = 90
b = 163.16	β = 91.81
c = 72.28	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-01-15 
Deposition Author(s): Bensen, D.C., Akers-Rodriguez, S., Lam, T., Tari, L.W.

Revision History  

• Version 1.0: 2014-01-15
  Type: Initial release
  
• Version 1.1: 2018-01-24
  Changes: Structure summary
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description