4UBD

Crystal structure of a neutralizing human monoclonal antibody with 1968 H3 HA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.212

Literature

Macromolecules
Sequence Display for 4UBD

Classification: viral protein / immune system

Total Structure Weight: 626076.00

Macromolecule Entities
Molecule Chains Length Organism Details
Hemagglutinin HA1 chain A, E, I..., M, Q, UA, E, I, M, Q, U 321 Influenza a virus Gene Name(s): HA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Hemagglutinin HA2 chain B, F, J..., N, R, VB, F, J, N, R, V 175 Influenza a virus Gene Name(s): HA
monoclonal antibody H chain C, G, K..., O, S, YC, G, K, O, S, Y 226 Homo sapiens
monoclonal antibody L chain D, H, L..., P, T, XD, H, L, P, T, X 215 Homo sapiens

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

A, E, F, I, M, Q, U, V N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A, E, I, M, Q, U ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

A, E, I, M, Q, U 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: 3.5 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.212
  • Space Group: P 31

Unit Cell:

Length (Å) Angle (°)
a = 128.70 α = 90.00
b = 128.70 β = 90.00
c = 428.32 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-08-12
  • Released Date: 2015-06-24
  • Deposition author(s): Shore, D.A., Yang, H., Cho, M., Donis, R.O., Stevens, J.

Revision History

  • Version 1_0: 2015-06-24

    Type: Initial release

  • Version 1_1: 2015-08-05

    Type: Database references

  • Version 1_2: 2017-09-27

    Type: Data collection, Derived calculations