6APD

Crystal structure of RSV F bound by AM22 and the infant antibody ADI-19425


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.10 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Infants Infected with Respiratory Syncytial Virus Generate Potent Neutralizing Antibodies that Lack Somatic Hypermutation.

Goodwin, E.Gilman, M.S.A.Wrapp, D.Chen, M.Ngwuta, J.O.Moin, S.M.Bai, P.Sivasubramanian, A.Connor, R.I.Wright, P.F.Graham, B.S.McLellan, J.S.Walker, L.M.

(2018) Immunity 48: 339-349.e5

  • DOI: 10.1016/j.immuni.2018.01.005
  • Primary Citation of Related Structures:  
    6APB, 6APC, 6APD

  • PubMed Abstract: 
  • Respiratory syncytial virus (RSV) is a leading cause of infant mortality, and there are currently no licensed vaccines to protect this vulnerable population. A comprehensive understanding of infant antibody responses to natural RSV infection would facilitate vaccine development ...

    Respiratory syncytial virus (RSV) is a leading cause of infant mortality, and there are currently no licensed vaccines to protect this vulnerable population. A comprehensive understanding of infant antibody responses to natural RSV infection would facilitate vaccine development. Here, we isolated more than 450 RSV fusion glycoprotein (F)-specific antibodies from 7 RSV-infected infants and found that half of the antibodies recognized only two antigenic sites. Antibodies targeting both sites showed convergent sequence features, and structural studies revealed the molecular basis for their recognition of RSV F. A subset of antibodies targeting one of these sites displayed potent neutralizing activity despite lacking somatic mutations, and similar antibodies were detected in RSV-naive B cell repertoires, suggesting that expansion of these B cells in infants may be possible with suitably designed vaccine antigens. Collectively, our results provide fundamental insights into infant antibody responses and a framework for the rational design of age-specific RSV vaccines.


    Organizational Affiliation

    Adimab LLC, Lebanon, NH 03766, USA. Electronic address: laura.walker@adimab.com.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fusion glycoprotein F0,Envelope glycoproteinA, B, C573Respiratory syncytial virusHuman immunodeficiency virus 1
This entity is chimeric
Mutation(s): 2 
UniProt
Find proteins for P10104 (Enterobacteria phage T4)
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Go to UniProtKB:  P10104
Find proteins for P03420 (Human respiratory syncytial virus A (strain A2))
Explore P03420 
Go to UniProtKB:  P03420
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP10104P03420
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
AM22 Fab Heavy Chain,IGH@ proteinD, F, H228Homo sapiensMutation(s): 0 
Gene Names: IGH@
UniProt
Find proteins for Q6GMX6 (Homo sapiens)
Explore Q6GMX6 
Go to UniProtKB:  Q6GMX6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6GMX6
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
AM22 Fab Light Chain,Uncharacterized proteinE, G, I215Homo sapiensMutation(s): 0 
UniProt
Find proteins for Q8TCD0 (Homo sapiens)
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Entity Groups  
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UniProt GroupQ8TCD0
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Immunoglobulin heavy variable 3-21,Immunoglobulin gamma-1 heavy chainJ, K, N226Homo sapiensMutation(s): 0 
Gene Names: IGHV3-21
UniProt & NIH Common Fund Data Resources
Find proteins for P0DOX5 (Homo sapiens)
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Go to UniProtKB:  P0DOX5
Find proteins for A0A0B4J1V1 (Homo sapiens)
Explore A0A0B4J1V1 
Go to UniProtKB:  A0A0B4J1V1
PHAROS:  A0A0B4J1V1
GTEx:  ENSG00000211947 
Entity Groups  
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UniProt GroupsA0A0B4J1V1P0DOX5
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
IGL@ proteinL, M, O218Homo sapiensMutation(s): 0 
Gene Names: IGL@
UniProt
Find proteins for Q6GMX4 (Homo sapiens)
Explore Q6GMX4 
Go to UniProtKB:  Q6GMX4
Entity Groups  
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UniProt GroupQ6GMX4
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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.10 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 229.47α = 90
b = 229.47β = 90
c = 304.05γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008704
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP41GM103393

Revision History  (Full details and data files)

  • Version 1.0: 2018-03-21
    Type: Initial release
  • Version 1.1: 2020-01-01
    Changes: Author supporting evidence