4XI5

gHgL of varicella-zoster virus in complex with human neutralizing antibodies

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.90 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 

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Ligand Structure Quality Assessment 


This is version 2.1 of the entry. See complete history. 



Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Envelope glycoprotein H833Human herpesvirus 3 strain Oka vaccineMutation(s): 0 
Gene Names: gH, ORF37
UniProt
Find proteins for Q775J3 (Varicella-zoster virus (strain Oka vaccine))
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Go to UniProtKB:  Q775J3
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UniProt GroupQ775J3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Envelope glycoprotein L138Human herpesvirus 3 strain Oka vaccineMutation(s): 0 
Gene Names: gL, ORF60
UniProt
Find proteins for Q9J3N1 (Varicella-zoster virus (strain Oka vaccine))
Explore Q9J3N1 
Go to UniProtKB:  Q9J3N1
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UniProt GroupQ9J3N1
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Fab-94 light chain214Homo sapiensMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Fab-94 heavy chain283Homo sapiensMutation(s): 0 
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Oligosaccharides

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Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
E
4N-Glycosylation
Glycosylation Resources
GlyTouCan:  G81315DD
GlyCosmos:  G81315DD
GlyGen:  G81315DD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.90 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 102.002α = 90
b = 280.552β = 90
c = 175.302γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

  • Released Date: 2015-05-13 
    • Deposition Author(s): Xing, Y.

Revision History  (Full details and data files)

  • Version 1.0: 2015-05-13
    Type: Initial release
  • Version 1.1: 2015-05-20
    Changes: Database references
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Database references, Derived calculations, Source and taxonomy, Structure summary
  • Version 2.1: 2023-09-27
    Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary