4IBE

Ebola virus VP35 bound to small molecule

Structural Biology Knowledgebase: 4IBE SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.183

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IBE

Classification: TRANSCRIPTION / TRANSCRIPTION inhibitor

Total Structure Weight: 29550.90

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

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
11Y
Query on 11Y

A, B 5-[(2R)-3-benzoyl-2-(4-bromothiophen-2-yl)- 4-hydroxy-5-oxo-2,5-dihydro-1H-pyrrol-1-yl]- 2-chlorobenzoic acid
C22 H13 Br Cl N O5 S
CERSDUPIILKAJP-SFHVURJKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
11Y N/A in BindingDB
Kd: 70600 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.183
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 51.57 α = 90.00
b = 65.51 β = 90.00
c = 72.16 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., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History

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