4JUO

A low-resolution three-gate structure of topoisomerase IV from Streptococcus pneumoniae in space group H32

Structural Biology Knowledgebase: 4JUO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.53 Å
  • R-Value Free: 0.298
  • R-Value Work: 0.247

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JUO

Classification: ISOMERASE / DNA

Total Structure Weight: 147277.44


Macromolecule Entities
Molecule Chains Length Organism Details
DNA topoisomerase 4 subunit A A 496 Streptococcus pneumoniae EC#: 5.99.1.3 IUBMB
Fragment: ParC55
Mutation: I257T
Gene Name(s): parC SP_0855
DNA topoisomerase 4 subunit B C 670 Streptococcus pneumoniae EC#: 5.99.1.3 IUBMB
Fragment: ParE
Mutation: N217D, V460I, T644A
Gene Name(s): parE SP_0852
Macromolecule Entities
Molecule Chains Length Organism Details
E-site DNA E 11 synthetic
E-site DNA F 15 synthetic
E-site DNA G 11 synthetic
E-site DNA H 15 synthetic

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

F (3S)-9-fluoro-3-methyl-10-(4-methylpiperazin- 1-yl)-7-oxo-2,3-dihydro-7H-[1,4]oxazino[2,3,4- ij]quinoline-6-carboxylic acid
Levofloxacin (Synonym)
C18 H20 F N3 O4
GSDSWSVVBLHKDQ-JTQLQIEISA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.53 Å
  • R-Value Free: 0.298
  • R-Value Work: 0.247
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 213.58 α = 90.00
b = 213.58 β = 90.00
c = 211.83 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-25
  • Released Date: 2013-08-28
  • Deposition author(s): Laponogov, I., Veselkov, D.A., Pan, X.-S., Crevel, I., Fisher, L.M., Sanderson, M.R.

Revision History

  • 2013-12-04
    Type: Citation | Details: Citation update
  • 2013-09-04
    Type: Citation | Details: Citation update