4RIS

Structural Analysis of the Unmutated Ancestor of the HIV-1 Envelope V2 Region Antibody CH58 Isolated From an RV144 HIV-1 Vaccine Efficacy Trial Vaccinee and Associated with Decreased Transmission Risk


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural analysis of the unmutated ancestor of the HIV-1 envelope V2 region antibody CH58 isolated from an RV144 vaccine efficacy trial vaccinee.

Nicely, N.I.Wiehe, K.Kepler, T.B.Jaeger, F.H.Dennison, S.M.Rerks-Ngarm, S.Nitayaphan, S.Pitisuttithum, P.Kaewkungwal, J.Robb, M.L.O'Connell, R.J.Michael, N.L.Kim, J.H.Liao, H.X.Munir Alam, S.Hwang, K.K.Bonsignori, M.Haynes, B.F.

(2015) EBioMedicine 2: 713-722

  • DOI: 10.1016/j.ebiom.2015.06.016
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Human monoclonal antibody CH58 isolated from an RV144 vaccinee binds at Lys169 of the HIV-1 Env gp120 V2 region, a site of vaccine-induced immune pressure. CH58 neutralizes HIV-1 CRF_01 AE strain 92TH023 and mediates ADCC against CD4 + T cell targets ...

    Human monoclonal antibody CH58 isolated from an RV144 vaccinee binds at Lys169 of the HIV-1 Env gp120 V2 region, a site of vaccine-induced immune pressure. CH58 neutralizes HIV-1 CRF_01 AE strain 92TH023 and mediates ADCC against CD4 + T cell targets infected with CRF_01 AE tier 2 virus. CH58 and other antibodies that bind to a gp120 V2 epitope have a second light chain complementarity determining region (LCDR2) bearing a glutamic acid, aspartic acid (ED) motif involved in forming salt bridges with polar, basic side amino acid side chains in V2. In an effort to learn how V2 responses develop, we determined the crystal structures of the CH58-UA antibody unliganded and bound to V2 peptide. The structures showed an LCDR2 structurally pre-conformed from germline to interact with V2 residue Lys169. LCDR3 was subject to conformational selection through the affinity maturation process. Kinetic analyses demonstrate that only a few contacts were responsible for a 2000-fold increase in KD through maturation, and this effect was predominantly due to an improvement in off-rate. This study shows that preconformation and preconfiguration can work in concert to produce antibodies with desired immunogenic properties.


    Organizational Affiliation

    Boston University Department of Microbiology, Boston, MA, USA.,Ministry of Public Health, Nonthaburi, Thailand.,Henry Jackson Foundation HIV Program, US Military HIV Research Program, Bethesda, MD, USA.,Duke Human Vaccine Institute, Duke University School of Medicine, Durham, NC, USA.,Mahidol University, Bangkok, Thailand.,Armed Forces Research Institute of Medical Sciences, Thailand.,US Military HIV Research Program (MHRP), Walter Reed Army Institute of Research, Silver Spring, MD, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Envelope glycoprotein
P
18Human immunodeficiency virus 1Mutation(s): 0 
Gene Names: env
Find proteins for Q70966 (Human immunodeficiency virus 1)
Go to UniProtKB:  Q70966
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
CH58-UA Fab heavy chain
H
231N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
CH58-UA Fab light chain
L
216N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.161 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 55.719α = 90.00
b = 53.908β = 108.92
c = 73.573γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
SERGUIdata collection
PHENIXphasing
PHENIXrefinement
HKL-2000data scaling
PHENIXmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2015-08-12
    Type: Initial release
  • Version 1.1: 2015-09-02
    Type: Database references