1RD8

Crystal Structure of the 1918 Human H1 Hemagglutinin Precursor (HA0)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.270

Literature

Macromolecules
Sequence Display for 1RD8

Classification: VIRAL PROTEIN

Total Structure Weight: 176796.27

Macromolecule Entities
Molecule Chains Length Organism Details
hemagglutinin A, C, E 335 Influenza a virus Fragment: Receptor binding domain, HA1 (residues 11-329)
Gene Name(s): HA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
hemagglutinin B, D, F 182 Influenza a virus Fragment: Membrane fusion domain, HA2 (residues 1-175)
Gene Name(s): HA

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NDG
Query on NDG

E 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

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

C ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

A, C, E BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.270
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 190.53 α = 90.00
b = 109.95 β = 108.63
c = 136.24 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-11-05
  • Released Date: 2004-03-23
  • Deposition author(s): Stevens, J., Corper, A.L., Basler, C.F., Taubenberger, J.K., Palese, P., Wilson, I.A.

Revision History

  • 2008-04-29
    Type: Version format compliance
  • 2011-07-13
    Type: Non-polymer description, Version format compliance
  • 2016-12-14
    Type: Structure summary