5JQ7

Crystal structure of Ebola glycoprotein in complex with toremifene


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.69 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.203

Literature

Macromolecules
Sequence Display for 5JQ7

Classification: VIRAL PROTEIN

Total Structure Weight: 57647.95

Macromolecule Entities
Molecule Chains Length Organism Details
Envelope glycoprotein 1,Envelope glycoprotein 1,Envelope glycoprotein 1 A 330 Zaire ebolavirus Mutation: T42A
Gene Name(s): GP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Envelope glycoprotein 2 B 168 Zaire ebolavirus Gene Name(s): GP

Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
T0R
Query on T0R

B Toremifene
C26 H28 Cl N O
XFCLJVABOIYOMF-QPLCGJKRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

B ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
UNK
Query on UNK
A L-PEPTIDE LINKING C4 H9 N O2 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.69 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.203
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 113.45 α = 90.00
b = 113.45 β = 90.00
c = 306.87 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-05-04
  • Released Date: 2016-06-29
  • Deposition author(s): Zhao, Y., Ren, J., Stuart, D.I.

Revision History

  • Version 1_0: 2016-06-29

    Type: Initial release

  • Version 1_1: 2016-07-13

    Type: Database references