3R0I

IspC in complex with an N-methyl-substituted hydroxamic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.163 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Reverse Fosmidomycin Derivatives against the Antimalarial Drug Target IspC (Dxr).

Behrendt, C.T.Kunfermann, A.Illarionova, V.Matheeussen, A.Pein, M.K.Grawert, T.Kaiser, J.Bacher, A.Eisenreich, W.Illarionov, B.Fischer, M.Maes, L.Groll, M.Kurz, T.

(2011) J.Med.Chem. 54: 6796-6802

  • DOI: 10.1021/jm200694q

  • PubMed Abstract: 
  • Reverse hydroxamate-based inhibitors of IspC, a key enzyme of the non-mevalonate pathway of isoprenoid biosynthesis and a validated antimalarial target, were synthesized and biologically evaluated. The binding mode of one derivative in complex with E ...

    Reverse hydroxamate-based inhibitors of IspC, a key enzyme of the non-mevalonate pathway of isoprenoid biosynthesis and a validated antimalarial target, were synthesized and biologically evaluated. The binding mode of one derivative in complex with EcIspC and a divalent metal ion was clarified by X-ray analysis. Pilot experiments have demonstrated in vivo potential.


    Organizational Affiliation

    Institut für Pharmazeutische und Medizinische Chemie, Heinrich Heine Universität, Universitätsstrasse 1, 40225 Düsseldorf, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
1-deoxy-D-xylulose 5-phosphate reductoisomerase
A, B
410Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: dxr (ispC, yaeM)
EC: 1.1.1.267
Find proteins for P45568 (Escherichia coli (strain K12))
Go to UniProtKB:  P45568
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A, B
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
C0K
Query on C0K

Download SDF File 
Download CCD File 
A, B
{(1S)-1-(3,4-difluorophenyl)-4-[hydroxy(methyl)amino]-4-oxobutyl}phosphonic acid
C11 H14 F2 N O5 P
IZWIBRNXHRUNKD-JTQLQIEISA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
C0KIC50: 120 nM BINDINGMOAD
C0KIC50: 120 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.163 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 91.254α = 90.00
b = 54.584β = 93.17
c = 107.798γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
REFMACrefinement
PROTEUM PLUSdata collection
CNSphasing
PROTEUM PLUSdata scaling
PROTEUM PLUSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-09-07
    Type: Initial release
  • Version 1.1: 2011-10-19
    Type: Database references
  • Version 1.2: 2019-07-17
    Type: Data collection, Refinement description