3VWS

Dengue serotype 3 RNA-dependent RNA polymerase bound to NITD-107

Structural Biology Knowledgebase: 3VWS SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.181

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3VWS

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 74593.96

Macromolecule Entities
Molecule Chains Length Organism Details
Non-structural protein 5 A 635 Dengue virus EC#: 2.7.7.48 IUBMB
Fragment: RNA-dependent RNA polymerase, UNP residues 2762-3390
Mutation: G374E

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

A DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
VWS
Query on VWS

A 5-{[(4-chlorophenyl)sulfonyl]amino}-2-methyl- 1-benzofuran-3-carboxylic acid
C16 H12 Cl N O5 S
UZVVWRBCUSWUON-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
VWS N/A in BindingDB
Kd: 225000 nM  BindingMOAD
Kd: 225000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.181
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 161.46 α = 90.00
b = 177.73 β = 90.00
c = 57.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-08-31
  • Released Date: 2013-02-27
  • Deposition author(s): Noble, C.G., Lescar, J.

Revision History

  • 2013-07-31
    Type: Citation | Details: Citation update