3NWF

Glycoprotein B from Herpes simplex virus type 1, low-pH

Structural Biology Knowledgebase: 3NWF SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 3NWF

Classification: VIRAL PROTEIN

Total Structure Weight: 317533.06

Macromolecule Entities
Molecule Chains Length Organism Details
Envelope glycoprotein B A, B, C, D 703 Human herpesvirus 1 Fragment: Ectodomain (UNP residues 30 to 730)
Mutation: P58A, T313S, Q443L
Gene Name(s): gB UL27
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

A, B MESO-ERYTHRITOL
C4 H10 O4
UNXHWFMMPAWVPI-ZXZARUISSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.197
  • Space Group: P 3

Unit Cell:

Length (Å) Angle (°)
a = 117.80 α = 90.00
b = 117.80 β = 90.00
c = 318.32 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-09
  • Released Date: 2010-12-01
  • Deposition author(s): Stampfer, S.D., Lou, H., Cohen, G.H., Eisenberg, R.J., Heldwein, E.E.

Revision History

  • 2011-12-28
    Type: Biological assembly | Details: --
  • 2011-12-21
    Type: Biological assembly | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4