5W24

Crystal Structure of 5C4 Fab


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.170 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis of respiratory syncytial virus subtype-dependent neutralization by an antibody targeting the fusion glycoprotein.

Tian, D.Battles, M.B.Moin, S.M.Chen, M.Modjarrad, K.Kumar, A.Kanekiyo, M.Graepel, K.W.Taher, N.M.Hotard, A.L.Moore, M.L.Zhao, M.Zheng, Z.Z.Xia, N.S.McLellan, J.S.Graham, B.S.

(2017) Nat Commun 8: 1877-1877

  • DOI: 10.1038/s41467-017-01858-w
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A licensed vaccine for respiratory syncytial virus (RSV) is unavailable, and passive prophylaxis with the antibody palivizumab is restricted to high-risk infants. Recently isolated antibodies 5C4 and D25 are substantially more potent than palivizumab ...

    A licensed vaccine for respiratory syncytial virus (RSV) is unavailable, and passive prophylaxis with the antibody palivizumab is restricted to high-risk infants. Recently isolated antibodies 5C4 and D25 are substantially more potent than palivizumab, and a derivative of D25 is in clinical trials. Here we show that unlike D25, 5C4 preferentially neutralizes subtype A viruses. The crystal structure of 5C4 bound to the RSV fusion (F) protein reveals that the overall binding mode of 5C4 is similar to that of D25, but their angles of approach are substantially different. Mutagenesis and virological studies demonstrate that RSV F residue 201 is largely responsible for the subtype specificity of 5C4. These results improve our understanding of subtype-specific immunity and the neutralization breadth requirements of next-generation antibodies, and thereby contribute to the design of broadly protective RSV vaccines.


    Related Citations: 
    • Structure of 5C4 Fab
      Battles, M.B.,McLellan, J.S.,Taher, N.M.
      () TO BE PUBLISHED --: --


    Organizational Affiliation

    Meissa Vaccines, Inc South, San Francisco, CA, 94080, USA.,State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, School of Public Health, Xiamen University, Xiamen, Fujian, 361005, China. nsxia@xmu.edu.cn.,National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361005, China.,National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361005, China. nsxia@xmu.edu.cn.,State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, School of Public Health, Xiamen University, Xiamen, Fujian, 361005, China.,Walter Reed Army Institute of Research, Silver Spring, MD, 20910, USA.,Division of Select Agents and Toxins, Centers for Disease Control and Prevention, Atlanta, GA, 30333, USA.,Department of Pediatrics, Emory University, Atlanta, GA, 30322, USA.,Department of Biochemistry and Cell Biology, Geisel School of Medicine at Dartmouth, Hanover, NH, 03755, USA. Jason.S.McLellan@Dartmouth.edu.,Department of Pediatrics, Vanderbilt University Medical Center, Nashville, TN, 37208, USA.,Department of Biochemistry and Cell Biology, Geisel School of Medicine at Dartmouth, Hanover, NH, 03755, USA.,Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, 20892, USA.,Department of Pulmonology, Children's Hospital of Chongqing Medical University, Chongqing, 400014, China.,Henry M. Jackson Foundation, Bethesda, MD, 20817, USA.,Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, 20892, USA. bgraham@nih.gov.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
5C4 Fab Light Chain
L
241N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
5C4 Fab Heavy Chain
H
249N/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
BU3
Query on BU3

Download SDF File 
Download CCD File 
H
(R,R)-2,3-BUTANEDIOL
C4 H10 O2
OWBTYPJTUOEWEK-QWWZWVQMSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.170 
  • Space Group: C 1 2 1
  • Diffraction Data DOI: 
    10.15785/SBGRID/537 SBGrid
Unit Cell:
Length (Å)Angle (°)
a = 116.960α = 90.00
b = 63.010β = 98.60
c = 56.540γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata reduction
PHENIXrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-12-06
    Type: Initial release
  • Version 1.1: 2017-12-13
    Type: Database references