5UQY

Crystal structure of Marburg virus GP in complex with the human survivor antibody MR78


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.262
  • R-Value Work: 0.221

Literature

Macromolecules
Sequence Display for 5UQY

Classification: VIRAL PROTEIN / IMMUNE SYSTEM

Total Structure Weight: 412952.53

Macromolecule Entities
Molecule Chains Length Organism Details
ENVELOPE GLYCOPROTEIN GP1 A, E, I, M 250 Marburg marburgvirus Fragment: UNP residues 17-256, 426-435
Gene Name(s): GP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ENVELOPE GLYCOPROTEIN GP2 B, F, J, N 237 Marburg marburgvirus Fragment: UNP residues 436-637
Mutation: F438L, W439A, F445G, F447N
Gene Name(s): GP
MR78 Fab light chain C, G, K, O 211 Homo sapiens
MR78 Fab heavy chain D, H, L, P 226 Homo sapiens

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

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

B, F, I, J, M, N ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

B, F, I, J, N 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: 3.6 Å
  • R-Value Free: 0.262
  • R-Value Work: 0.221
  • Space Group: P 63

Unit Cell:

Length (Å) Angle (°)
a = 204.65 α = 90.00
b = 204.65 β = 90.00
c = 192.96 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-02-08
  • Released Date: 2017-03-01
  • Deposition author(s): Hashiguchi, T., Fusco, M.L., Hastie, K.M., Bomholdt, Z.A., Lee, J.E., Flyak, A.I., Matsuoka, R., Kohda, D., Yanagi, Y., Hammel, M., Crowe, J.E., Saphire, E.O.
  • Previous versions: 3X2D

Revision History

  • Version 1_0: 2017-03-01

    Type: Initial release

  • Version 1_1: 2017-09-27

    Type: Author supporting evidence, Data collection