2O39

Human Adenovirus type 11 knob in complex with domains SCR1 and SCR2 of CD46 (membrane cofactor protein, MCP)

Structural Biology Knowledgebase: 2O39 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.238

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2O39

Classification: VIRAL PROTEIN / immune system

Total Structure Weight: 74422.02

Macromolecule Entities
Molecule Chains Length Organism Details
Fiber protein A, B 197 Human mastadenovirus b Fragment: residues 129-325
Gene Name(s): L5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Membrane cofactor protein C, D 126 Homo sapiens Fragment: SCR1 and SCR 2 domains
Gene Name(s): CD46 Gene View MCP MIC10
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

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

C, D BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

C, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.238
  • Space Group: P 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 106.14 α = 90.00
b = 106.14 β = 90.00
c = 68.32 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-12-01
  • Released Date: 2007-01-09
  • Deposition author(s): Persson, D.B., Reiter, D.M., Arnberg, N., Stehle, T.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4