1F8B

Native Influenza Virus Neuraminidase in Complex with NEU5AC2EN

Structural Biology Knowledgebase: 1F8B SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.166

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1F8B

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 45994.29

Macromolecule Entities
Molecule Chains Length Organism Details
NEURAMINIDASE A 388 Influenza a virus EC#: 3.2.1.18 IUBMB
Fragment: INTEGRAL MEMBRANE PROTEIN, MEMBRANE STALK CLEAVED BY PRONASE RELEASING FULLY ACTIVE RESIDUES 82-468.
Mutation: I376M, E386D, R387K
Gene Name(s): NA

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DAN
Query on DAN

A 2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID
C11 H17 N O8
JINJZWSZQKHCIP-UFGQHTETSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

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

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

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DAN IC50: 13000 nM (100) BindingDB

Ki: 4000 nM  BindingMOAD
Ki: 4000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.166
  • Space Group: I 4 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 181.03 α = 90.00
b = 181.03 β = 90.00
c = 181.03 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-06-30
  • Released Date: 2001-04-11
  • Deposition author(s): Smith, B.J., Colman, P.M., Von Itzstein, M., Danylec, B., Varghese, J.N.

Revision History

  • 2015-03-11
    Type: Other | Details: --
  • 2011-11-16
    Type: Atom occupancy | Details: Atom occupancy
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update