5ZS0 | pdb_00005zs0

Structure of glycoprotein B Domain IV of pseudorabies virus with 7B11 antibody

• PDB DOI: https://doi.org/10.2210/pdb5ZS0/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Mus musculus, Suid alphaherpesvirus 1
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2018-04-26 Released: 2019-05-22 
• Deposition Author(s): Hu, X.L., Yang, F.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.29 Å
• R-Value Free: 
  0.310 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.241 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.244 (Depositor) 

Starting Model: experimental

Literature

Structural Basis for the Recognition of Pseudorabies Virus Glycoprotein B by a Complement-dependent Neutralizing Antibody

Hu, X.L., Peng, R.C., Li, X.D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 74.42 kDa 
• Atom Count: 4,628 
• Modeled Residue Count: 603 
• Deposited Residue Count: 684 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
7B11 light chain	A	211	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
7B11 heavy chain	B	219	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein B,Envelope glycoprotein B	C	254	Suid alphaherpesvirus 1	Mutation(s): 0  Gene Names: gB
UniProt
Find proteins for A0A1Q0AKY5 (Suid herpesvirus 1) Explore A0A1Q0AKY5  Go to UniProtKB:  A0A1Q0AKY5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.29 Å
• R-Value Free:  0.310 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.241 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.244 (Depositor) 

Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 128.907	α = 90
b = 128.907	β = 90
c = 194.914	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SHELXD	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-05-22 
Deposition Author(s): Hu, X.L., Yang, F.L.

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Funding Organization	Location	Grant Number
	China	--

Revision History  

• Version 1.0: 2019-05-22
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary