Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 215.10 kDa 
• Atom Count: 14223 
• Residue Count: 1732 
• Unique protein chains: 1

2GUM

Crystal structure of the extracellular domain of glycoprotein B from Herpes Simplex Virus type I

• DOI: 10.2210/pdb2GUM/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Human alphaherpesvirus 1 strain KOS
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2006-05-01 Released: 2006-07-25 
• Deposition Author(s): Heldwein, E.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.275 
• R-Value Work: 0.248 
• R-Value Observed: 0.248 

Literature

Crystal structure of glycoprotein B from herpes simplex virus 1.

Heldwein, E.E., Lou, H., Bender, F.C., Cohen, G.H., Eisenberg, R.J., Harrison, S.C.

(2006) Science 313: 217-220

• PubMed: 16840698 
• DOI: 10.1126/science.1126548
• Primary Citation of Related Structures:  
  2GUM


• PubMed Abstract: 
  

Glycoprotein B (gB) is the most conserved component of the complex cell-entry machinery of herpes viruses. A crystal structure of the gB ectodomain from herpes simplex virus type 1 reveals a multidomain trimer with unexpected homology to glycoprotein G from vesicular stomatitis virus (VSV G). An alpha-helical coiled-coil core relates gB to class I viral membrane fusion glycoproteins; two extended beta hairpins with hydrophobic tips, homologous to fusion peptides in VSV G, relate gB to class II fusion proteins. Members of both classes accomplish fusion through a large-scale conformational change, triggered by a signal from a receptor-binding component. The domain connectivity within a gB monomer would permit such a rearrangement, including long-range translocations linked to viral and cellular membranes.

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Organizational Affiliation: 

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 320 Longwood Avenue, Boston, MA 02115, USA. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycoprotein B	A, B, C	628	Human alphaherpesvirus 1 strain KOS	Mutation(s): 0  Gene Names: gB, UL27
Find proteins for P06437 (Human herpesvirus 1 (strain KOS)) Explore P06437  Go to UniProtKB:  P06437

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	A, B, C	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.275 
• R-Value Work: 0.248 
• R-Value Observed: 0.248 
• Space Group: P 1
• Diffraction Data DOI: 10.15785/SBGRID/122 SBGrid
• Diffraction Data DOI: 10.15785/SBGRID/120 SBGrid

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.959	α = 67.04
b = 100.039	β = 77.99
c = 100.133	γ = 70.31

Software Package:

Software Name	Purpose
ADSC	data collection
DENZO	data reduction
SnB	phasing
CNS	refinement
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-05-01 
• Released Date: 2006-07-25 
Deposition Author(s): Heldwein, E.E.

Revision History 

• Version 1.0: 2006-07-25
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description