6C6Z

Crystal structure of potent neutralizing antibody CDC2-C2 in complex with MERS-CoV S1 RBD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Importance of neutralizing monoclonal antibodies targeting multiple antigenic sites on MERS-CoV Spike to avoid neutralization escape.

Wang, L.Shi, W.Chappell, J.D.Joyce, M.G.Zhang, Y.Kanekiyo, M.Becker, M.M.van Doremalen, N.Fischer, R.Wang, N.Corbett, K.S.Choe, M.Mason, R.D.Van Galen, J.G.Zhou, T.Saunders, K.O.Tatti, K.M.Haynes, L.M.Kwong, P.D.Modjarrad, K.Kong, W.P.McLellan, J.S.Denison, M.R.Munster, V.J.Mascola, J.R.Graham, B.S.

(2018) J. Virol. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Spike protein
A, B
231Middle East respiratory syndrome-related coronavirusMutation(s): 0 
Gene Names: S
Find proteins for K9N5Q8 (Middle East respiratory syndrome-related coronavirus)
Go to UniProtKB:  K9N5Q8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Antibody CDC2-C2 heavy chain
C, H
239N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Antibody CDC2-C2 light chain
D, L
218N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.191 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 60.819α = 90.00
b = 166.850β = 90.00
c = 184.819γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
PHENIXrefinement
PHASERphasing
Aimlessdata scaling
iMOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesR01AI127521

Revision History 

  • Version 1.0: 2018-01-31
    Type: Initial release
  • Version 1.1: 2018-02-14
    Type: Derived calculations
  • Version 1.2: 2018-03-21
    Type: Database references