5BOD

Crystal structure of Streptococcus pneumonia ParE inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Application of Fragment-based Drug Discovery against DNA GyraseB

Chen, G.Y.Ng, F.M.Tan, Y.W.Poulsen, A.Seetoh, W.Lin, G.Kang, C.Then, S.W.Ahmad, N.H.Wong, Y.L.Ng, H.Q.Chia, B.C.S.Lau, Q.Y.Hill, J.Hung, A.W.Keller, T.H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA topoisomerase 4 subunit B
A
226Streptococcus pneumoniae (strain ATCC BAA-255 / R6)Mutation(s): 0 
Gene Names: parE
EC: 5.6.2.3
Find proteins for Q8DQB5 (Streptococcus pneumoniae (strain ATCC BAA-255 / R6))
Go to UniProtKB:  Q8DQB5
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TTJ
Query on TTJ

Download SDF File 
Download CCD File 
A
(2R)-N-[3-(3,5-dimethylphenyl)-1H-pyrazol-5-yl]-1,4-dioxane-2-carboxamide
C16 H19 N3 O3
IFBWFTQSSMRHQI-CQSZACIVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.206 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 73.402α = 90.00
b = 94.458β = 90.00
c = 60.967γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERdata processing
PDB_EXTRACTdata extraction
SAINTdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agency for Science, Technology and Research (A*STAR) Joint CouncilSingapore1231B105

Revision History 

  • Version 1.0: 2015-06-17
    Type: Initial release