1RVF

FAB COMPLEXED WITH INTACT HUMAN RHINOVIRUS

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.00 Å
  • R-Value Work: 0.212 
  • R-Value Observed: 0.212 

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This is version 1.2 of the entry. See complete history. 


Literature

Neutralizing antibody to human rhinovirus 14 penetrates the receptor-binding canyon.

Smith, T.J., Chase, E.S., Schmidt, T.J., Olson, N.H., Baker, T.S.

(1996) Nature 383: 350-354

  • DOI: 10.1038/383350a0
  • Primary Citation of Related Structures:  
    1RVF

  • PubMed Abstract: 

    • The three-dimensional structure of intact human rhinovirus 14 (HRV-14) complexed with Fab fragments (Fab17-IA) from a strongly neutralizing antibody that binds bivalently to the virion has been determined to 4.0 angstrom resolution by a combination of X-ray crystallography and cryo-electron microscopy ...

    The three-dimensional structure of intact human rhinovirus 14 (HRV-14) complexed with Fab fragments (Fab17-IA) from a strongly neutralizing antibody that binds bivalently to the virion has been determined to 4.0 angstrom resolution by a combination of X-ray crystallography and cryo-electron microscopy. In contradiction to the most commonly held model of antibody-mediated neutralization, Fab17-IA does not induce a conformational change in the HRV-14 capsid. Instead, the paratope of the antibody undergoes a large conformational change to accommodate the epitope. Unlike any previously described antibody-antigen structure, the conserved framework region of the antibody makes extensive contact with the viral surface. Fab17-IA penetrates deep within the canyon in which the cellular receptor for HRV-14 binds. Hence, it is unlikely that viral quaternary structure evolves merely to evade immune recognition. Instead, the shape and position of the receptor-binding region on a virus probably dictates receptor binding and subsequent uncoating events and has little or no influence on concealing the virus from the immune system.

    Related Citations: 
    • Structure Determination of an Fab Fragment that Neutralizes Human Rhinovirus 14 and Analysis of the Fab-Virus Complex
      Liu, H., Smith, T.J., Lee, W.M., Mosser, A.G., Rueckert, R.R., Olson, N.H., Cheng, R.H., Baker, T.S.
      (1994) J Mol Biol 240: 127
    • Structure of a Human Common Cold Virus and Functional Relationship to Other Picornaviruses
      Rossmann, M.G., Arnold, E., Erickson, J.W., Frankenberger, E.A., Griffith, J.P., Hecht, H.J., Johnson, J.E., Kamer, G., Luo, M., Mosser, A.G., Rueckert, R.R., Sherry, B., Vriend, G.
      (1985) Nature 317: 145
    Organizational Affiliation: 

    Department of Biological Sciences, Purdue University, West Lafayette, Indiana 47907-1392, USA. tom@bragg.bio.purdue.edu



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
HUMAN RHINOVIRUS 14 COAT PROTEIN 1289Rhinovirus B14Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P03303 (Human rhinovirus 14)
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
HUMAN RHINOVIRUS 14 COAT PROTEIN 2262Rhinovirus B14Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P03303 (Human rhinovirus 14)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
HUMAN RHINOVIRUS 14 COAT PROTEIN 3236Rhinovirus B14Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P03303 (Human rhinovirus 14)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
HUMAN RHINOVIRUS 14 COAT PROTEIN 468Human rhinovirus sp.Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P03303 (Human rhinovirus 14)
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
FAB 17-IA L110Mus musculusMutation(s): 0 
Find proteins for Q8K1F2 (Mus musculus)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
FAB 17-IA H119Mus musculusMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.00 Å
  • R-Value Work: 0.212 
  • R-Value Observed: 0.212 
  • Space Group: R 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 372α = 108.4
b = 372β = 108.4
c = 372γ = 108.4
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
ENVELOPEmodel building
X-PLORrefinement
ENVELOPEphasing

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 1996-09-05 
  • Released Date: 1998-02-25 
    • Deposition Author(s): Smith, T.J.

Revision History  (Full details and data files)

  • Version 1.0: 1998-02-25
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance