5VOC

Crystal structure of HCMV Pentamer in complex with neutralizing antibody 8I21 - Low resolution dataset for initial phasing by SAD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.99 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.259

Literature

Macromolecules
Sequence Display for 5VOC

Classification: Viral Protein / Immune System

Total Structure Weight: 235031.95

Macromolecule Entities
Molecule Chains Length Organism Details
Envelope glycoprotein H A 725 Human betaherpesvirus 5 Gene Name(s): gH UL75
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Envelope glycoprotein L B 278 Human betaherpesvirus 5 Gene Name(s): gL UL115
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Envelope glycoprotein UL128 C 171 Human betaherpesvirus 5 Gene Name(s): UL128
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Envelope glycoprotein UL130 D 252 Human betaherpesvirus 5 Gene Name(s): UL130
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Envelope glycoprotein UL131A E 129 Human betaherpesvirus 5 Gene Name(s): UL131A
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fab 8I21 heavy chain H 289 Homo sapiens
Fab 8I21 light chain L 235 Homo sapiens

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

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

E BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.99 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.259
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 124.42 α = 90.00
b = 146.53 β = 90.00
c = 190.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-05-02
  • Released Date: 2017-07-05
  • Deposition author(s): Malito, E., Chandramouli, S.

Revision History

  • Version 1_0: 2017-07-05

    Type: Initial release

  • Version 1_1: 2017-07-12

    Type: Database references

  • Version 1_2: 2017-08-23

    Type: Database references