4IBC

Ebola virus VP35 bound to small molecule

Structural Biology Knowledgebase: 4IBC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IBC

Classification: TRANSCRIPTION / TRANSCRIPTION inhibitor

Total Structure Weight: 29463.97

Macromolecule Entities
Molecule Chains Length Organism Details
Polymerase cofactor VP35 A, B 129 Zaire ebolavirus Fragment: unp residues 215-340
Gene Name(s): VP35

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
12G
Query on 12G

A, B {4-[(2R)-3-(2-chlorobenzoyl)-2-(2-chlorophenyl)- 4-hydroxy-5-oxo-2,5-dihydro-1H-pyrrol-1-yl]phenyl}acetic acid
C25 H17 Cl2 N O5
PDDRNBYLNRVKJE-QFIPXVFZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
12G N/A in BindingDB
Kd: 1049000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.191
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 51.95 α = 90.00
b = 65.90 β = 90.00
c = 72.04 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-08
  • Released Date: 2014-03-19
  • Deposition author(s): Brown, C.S., Leung, D.W., Xu, W., Borek, D.M., Otwinowski, Z., Ramanan, P., Stubbs, A.J., Peterson, D.S., Binning, J.M., Amarasinghe, G.K.

Revision History

  • 2014-05-14
    Type: Citation | Details: Citation update