4YDV

STRUCTURE OF THE ANTIBODY 7B2 THAT CAPTURES HIV-1 VIRIONS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Human Non-neutralizing HIV-1 Envelope Monoclonal Antibodies Limit the Number of Founder Viruses during SHIV Mucosal Infection in Rhesus Macaques.

Santra, S.Tomaras, G.D.Warrier, R.Nicely, N.I.Liao, H.X.Pollara, J.Liu, P.Alam, S.M.Zhang, R.Cocklin, S.L.Shen, X.Duffy, R.Xia, S.M.Schutte, R.J.Pemble Iv, C.W.Dennison, S.M.Li, H.Chao, A.Vidnovic, K.Evans, A.Klein, K.Kumar, A.Robinson, J.Landucci, G.Forthal, D.N.Montefiori, D.C.Kaewkungwal, J.Nitayaphan, S.Pitisuttithum, P.Rerks-Ngarm, S.Robb, M.L.Michael, N.L.Kim, J.H.Soderberg, K.A.Giorgi, E.E.Blair, L.Korber, B.T.Moog, C.Shattock, R.J.Letvin, N.L.Schmitz, J.E.Moody, M.A.Gao, F.Ferrari, G.Shaw, G.M.Haynes, B.F.

(2015) Plos Pathog. 11: e1005042-e1005042

  • DOI: 10.1371/journal.ppat.1005042

  • PubMed Abstract: 
  • HIV-1 mucosal transmission begins with virus or virus-infected cells moving through mucus across mucosal epithelium to infect CD4+ T cells. Although broadly neutralizing antibodies (bnAbs) are the type of HIV-1 antibodies that are most likely protect ...

    HIV-1 mucosal transmission begins with virus or virus-infected cells moving through mucus across mucosal epithelium to infect CD4+ T cells. Although broadly neutralizing antibodies (bnAbs) are the type of HIV-1 antibodies that are most likely protective, they are not induced with current vaccine candidates. In contrast, antibodies that do not neutralize primary HIV-1 strains in the TZM-bl infection assay are readily induced by current vaccine candidates and have also been implicated as secondary correlates of decreased HIV-1 risk in the RV144 vaccine efficacy trial. Here, we have studied the capacity of anti-Env monoclonal antibodies (mAbs) against either the immunodominant region of gp41 (7B2 IgG1), the first constant region of gp120 (A32 IgG1), or the third variable loop (V3) of gp120 (CH22 IgG1) to modulate in vivo rectal mucosal transmission of a high-dose simian-human immunodeficiency virus (SHIV-BaL) in rhesus macaques. 7B2 IgG1 or A32 IgG1, each containing mutations to enhance Fc function, was administered passively to rhesus macaques but afforded no protection against productive clinical infection while the positive control antibody CH22 IgG1 prevented infection in 4 of 6 animals. Enumeration of transmitted/founder (T/F) viruses revealed that passive infusion of each of the three antibodies significantly reduced the number of T/F genomes. Thus, some antibodies that bind HIV-1 Env but fail to neutralize virus in traditional neutralization assays may limit the number of T/F viruses involved in transmission without leading to enhancement of viral infection. For one of these mAbs, gp41 mAb 7B2, we provide the first co-crystal structure in complex with a common cyclical loop motif demonstrated to be critical for infection by other retroviruses.


    Organizational Affiliation

    Center for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts, United States of America.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HIV GP41 PEPTIDE GP41(596-606)
P, Q
13Human immunodeficiency virus type 1 group M subtype BMutation(s): 0 
Gene Names: env
Find proteins for P04578 (Human immunodeficiency virus type 1 group M subtype B)
Go to UniProtKB:  P04578
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HIV ANTIBODY 7B2 LIGHT CHAIN,Ig kappa chain C region
L, A
265Homo sapiensMutation(s): 0 
Gene Names: IGKC
Find proteins for P01834 (Homo sapiens)
Go to UniProtKB:  P01834
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
HIV ANTIBODY 7B2 HEAVY CHAIN,IgG H chain
H, B
252Homo sapiensMutation(s): 0 
Find proteins for S6B291 (Homo sapiens)
Go to UniProtKB:  S6B291
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
NH2
Query on NH2
P, Q
NON-POLYMERH2 N

--

ACE
Query on ACE
P, Q
NON-POLYMERC2 H4 O

--

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.189 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 73.434α = 90.00
b = 76.281β = 98.06
c = 127.627γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHENIXrefinement
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-08-12
    Type: Initial release