1OKE

Crystal structure of the dengue 2 virus envelope protein in complex with n-octyl-beta-D-glucoside

Structural Biology Knowledgebase: 1OKE SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.294
  • R-Value Work: 0.263

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1OKE

Classification: VIRAL PROTEIN

Total Structure Weight: 90132.14

Macromolecule Entities
Molecule Chains Length Organism Details
MAJOR ENVELOPE PROTEIN E A, B 394 Dengue virus Fragment: SOLUBLE ECTODOMAIN, RESIDUES 281-674
Mutation: D71E, D390N
Gene Name(s):

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BOG
Query on BOG

A, B B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
Ligand Explorer
 
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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

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

A, B BETA-L-FUCOSE
6-DEOXY-BETA-L-GALACTOSE (Synonym)
C6 H12 O5
SHZGCJCMOBCMKK-KGJVWPDLSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.294
  • R-Value Work: 0.263
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 81.60 α = 90.00
b = 81.60 β = 90.00
c = 287.41 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-22
  • Released Date: 2003-07-24
  • Deposition author(s): Modis, Y., Harrison, S.C.
  • Previous versions: 1OAM

Revision History

  • 2012-01-18
    Type: Geometry validation | Details: REMARK 500
  • 2012-01-18
    Type: Function and keywords | Details: KEYWDS
  • 2012-01-18
    Type: Other | Details: HEADER,REMARK 525,MASTER
  • 2012-01-18
    Type: Atom nomenclature | Details: HETATM
  • 2012-01-18
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2012-01-18
    Type: Linkage | Details: LINK
  • 2012-01-18
    Type: Citation | Details: REMARK 1,JRNL
  • 2012-01-18
    Type: Binding sites and description | Details: REMARK 800,SITE
  • 2012-01-18
    Type: Non-polymer description | Details: HETSYN,FORMUL,HETNAM,HET