An MPER antibody neutralizes HIV-1 using germline features shared among donors

Zhang, Lei; Irimia, Adriana; He, Lingling; Landais, Elise; Rantalainen, Kimmo; Leaman, Daniel P.; Vollbrecht, Thomas; Stano, Armando; Sands, Daniel I.; Kim, Arthur S.; Poignard, Pascal; Burton, Dennis R.; Murrell, Ben; Ward, Andrew B.; Zhu, Jiang; Wilson, Ian A.; Zwick, Michael B.

doi:10.1038/s41467-019-12973-1

Title: An MPER antibody neutralizes HIV-1 using germline features shared among donors

Journal Article · 26 November 2019 · Nature Communications

DOI: https://doi.org/10.1038/s41467-019-12973-1 · OSTI ID:1624211

Zhang, Lei ^[1]; Irimia, Adriana ^[2]; He, Lingling ^[2]; Landais, Elise ^[3]; Rantalainen, Kimmo ^[2]; Leaman, Daniel P. ^[2];

^[4]; Stano, Armando ^[2];

^[2];

^[2]; Poignard, Pascal ^[3];

^[5]; Murrell, Ben ^[6];

^[2]; Zhu, Jiang ^[2];

^[2]; Zwick, Michael B. ^[2]

The Scripps Research Inst., La Jolla, CA (United States); DOE/OSTI
The Scripps Research Inst., La Jolla, CA (United States)
The Scripps Research Inst., La Jolla, CA (United States); International AIDS Vaccine Initiative, New York, NY (United States)
Univ. of California, San Diego, CA (United States)
The Scripps Research Inst., La Jolla, CA (United States); MIT and Harvard, Cambridge, MA (United States). Ragon Institute of Massachusetts General Hospital
Univ. of California, San Diego, CA (United States); Karolinska Institutet, Stockholm (Sweden). Department of Microbiology, Tumor and Cell Biology

The membrane-proximal external region (MPER) of HIV-1 envelope glycoprotein (Env) can be targeted by neutralizing antibodies of exceptional breadth. MPER antibodies usually have long, hydrophobic CDRH3s, lack activity as inferred germline precursors, are often from the minor IgG3 subclass, and some are polyreactive, such as 4E10. Here we describe an MPER broadly neutralizing antibody from the major IgG1 subclass, PGZL1, which shares germline V/D-region genes with 4E10, has a shorter CDRH3, and is less polyreactive. A recombinant sublineage variant pan-neutralizes a 130-isolate panel at 1.4 μg/ml (IC₅₀). Notably, a germline revertant with mature CDR3s neutralizes 12% of viruses and still binds MPER after DJ reversion. Crystal structures of lipid-bound PGZL1 variants and cryo-EM reconstruction of an Env-PGZL1 complex reveal how these antibodies recognize MPER and viral membrane. Discovery of common genetic and structural elements among MPER antibodies from different patients suggests that such antibodies could be elicited using carefully designed immunogens.

View Accepted Manuscript (DOE)

Cite

Export

Save

Research Organization:: SLAC National Accelerator Laboratory, Menlo Park, CA (United States). Stanford Synchrotron Radiation Lightsource (SSRL)

Sponsoring Organization:: USDOE Office of Science (SC), Basic Energy Sciences (BES); USDOE Office of Science (SC), Biological and Environmental Research (BER); National Institutes of Health (NIH); HIV Vaccine Research and Design (HIVRAD); James B. Pendleton Charitable Trust; United States Agency for International Development (USAID), Ministry of Foreign Affairs of the Netherlands; Bill & Melinda Gates Foundation; National Institute of General Medical Sciences (NIGMS)

Contributing Organization:: IAVI Protocol G Investigators

Grant/Contract Number:: AC02-76SF00515

OSTI ID:: 1624211

Journal Information:: Nature Communications, Journal Name: Nature Communications Journal Issue: 1 Vol. 10; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

References (115)

Synthesis and analysis of the membrane proximal external region epitopes of HIV-1: GP41 MPER MIMETICS Ingale, Sampat; Gach, Johannes S.; Zwick, Michael B. Journal of Peptide Science, Vol. 16, Issue 12 https://doi.org/10.1002/psc.1325	journal	November 2010
Somatic Mutations of the Immunoglobulin Framework Are Generally Required for Broad and Potent HIV-1 Neutralization Klein, Florian; Diskin, Ron; Scheid, Johannes F. Cell, Vol. 153, Issue 1 https://doi.org/10.1016/j.cell.2013.03.018	journal	March 2013
Structural Determination of the Broadly Reactive Anti- IGHV1-69 Anti-idiotypic Antibody G6 and Its Idiotope Avnir, Yuval; Prachanronarong, Kristina L.; Zhang, Zhen Cell Reports, Vol. 21, Issue 11 https://doi.org/10.1016/j.celrep.2017.11.056	journal	December 2017
Surface-Matrix Screening Identifies Semi-specific Interactions that Improve Potency of a Near Pan-reactive HIV-1-Neutralizing Antibody Kwon, Young D.; Chuang, Gwo-Yu; Zhang, Baoshan Cell Reports, Vol. 22, Issue 7 https://doi.org/10.1016/j.celrep.2018.01.023	journal	February 2018
Broadly Neutralizing Anti-HIV Antibody 4E10 Recognizes a Helical Conformation of a Highly Conserved Fusion-Associated Motif in gp41 Cardoso, Rosa M. F.; Zwick, Michael B.; Stanfield, Robyn L. Immunity, Vol. 22, Issue 2 https://doi.org/10.1016/j.immuni.2004.12.011	journal	February 2005
Identification of Common Features in Prototype Broadly Neutralizing Antibodies to HIV Envelope V2 Apex to Facilitate Vaccine Design Andrabi, Raiees; Voss, James E.; Liang, Chi-Hui Immunity, Vol. 43, Issue 5 https://doi.org/10.1016/j.immuni.2015.10.014	journal	November 2015
Crystallographic Identification of Lipid as an Integral Component of the Epitope of HIV Broadly Neutralizing Antibody 4E10 Irimia, Adriana; Sarkar, Anita; Stanfield, Robyn L. Immunity, Vol. 44, Issue 1 https://doi.org/10.1016/j.immuni.2015.12.001	journal	January 2016
HIV-1 Vaccines Based on Antibody Identification, B Cell Ontogeny, and Epitope Structure Kwong, Peter D.; Mascola, John R. Immunity, Vol. 48, Issue 5 https://doi.org/10.1016/j.immuni.2018.04.029	journal	May 2018
Longitudinal Analysis Reveals Early Development of Three MPER-Directed Neutralizing Antibody Lineages from an HIV-1-Infected Individual Krebs, Shelly J.; Kwon, Young D.; Schramm, Chaim A. Immunity, Vol. 50, Issue 3 https://doi.org/10.1016/j.immuni.2019.02.008	journal	March 2019
Functional Contacts between MPER and the Anti-HIV-1 Broadly Neutralizing Antibody 4E10 Extend into the Core of the Membrane Rujas, Edurne; Insausti, Sara; García-Porras, Miguel Journal of Molecular Biology, Vol. 429, Issue 8 https://doi.org/10.1016/j.jmb.2017.03.008	journal	April 2017
Computational Design of Epitope-Scaffolds Allows Induction of Antibodies Specific for a Poorly Immunogenic HIV Vaccine Epitope Correia, Bruno E.; Ban, Yih-En Andrew; Holmes, Margaret A. Structure, Vol. 18, Issue 9 https://doi.org/10.1016/j.str.2010.06.010	journal	September 2010
Broad and potent neutralization of HIV-1 by a gp41-specific human antibody Huang, Jinghe; Ofek, Gilad; Laub, Leo Nature, Vol. 491, Issue 7424 https://doi.org/10.1038/nature11544	journal	September 2012
Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus Liao, Hua-Xin; Lynch, Rebecca; Zhou, Tongqing Nature, Vol. 496, Issue 7446 https://doi.org/10.1038/nature12053	journal	April 2013
cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination Punjani, Ali; Rubinstein, John L.; Fleet, David J. Nature Methods, Vol. 14, Issue 3 https://doi.org/10.1038/nmeth.4169	journal	February 2017
An HIV-1 antibody from an elite neutralizer implicates the fusion peptide as a site of vulnerability van Gils, Marit J.; van den Kerkhof, Tom L. G. M.; Ozorowski, Gabriel Nature Microbiology, Vol. 2, Issue 2 https://doi.org/10.1038/nmicrobiol.2016.199	journal	November 2016
Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer Cao, Liwei; Pauthner, Matthias; Andrabi, Raiees Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-06121-4	journal	September 2018
Irritant-evoked activation and calcium modulation of the TRPA1 receptor Zhao, Jianhua; Lin King, John V.; Paulsen, Candice E. Nature, Vol. 585, Issue 7823 https://doi.org/10.1038/s41586-020-2480-9	journal	July 2020
Full-length transcriptome analysis of multiple organs and identification of adaptive genes and pathways in Mikania micrantha Ruan, Xiaoxian; Wang, Zhen; Su, Yingjuan Scientific Reports, Vol. 12, Issue 1 https://doi.org/10.1038/s41598-022-07198-0	journal	February 2022
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/s0907444909047337	journal	January 2010
Comparative lipidomics analysis of HIV-1 particles and their producer cell membrane in different cell lines: Lipidomics of HIV-1 particles and producer plasma membranes Lorizate, Maier; Sachsenheimer, Timo; Glass, Bärbel Cellular Microbiology, Vol. 15, Issue 2 https://doi.org/10.1111/cmi.12101	journal	January 2013
Cardiolipin Polyspecific Autoreactivity in Two Broadly Neutralizing HIV-1 Antibodies Haynes, B. F. Science, Vol. 308, Issue 5730 https://doi.org/10.1126/science.1111781	journal	June 2005
Hepatitis C Virus E2 Envelope Glycoprotein Core Structure Kong, L.; Giang, E.; Nieusma, T. Science, Vol. 342, Issue 6162 https://doi.org/10.1126/science.1243876	journal	November 2013
Cryo-EM structure of a native, fully glycosylated, cleaved HIV-1 envelope trimer Lee, J. H.; Ozorowski, G.; Ward, A. B. Science, Vol. 351, Issue 6277 https://doi.org/10.1126/science.aad2450	journal	March 2016
HIV-1 broadly neutralizing antibody precursor B cells revealed by germline-targeting immunogen Jardine, J. G.; Kulp, D. W.; Havenar-Daughton, C. Science, Vol. 351, Issue 6280 https://doi.org/10.1126/science.aad9195	journal	March 2016
Potent and broad HIV-neutralizing antibodies in memory B cells and plasma Williams, LaTonya D.; Ofek, Gilad; Schätzle, Sebastian Science Immunology, Vol. 2, Issue 7 https://doi.org/10.1126/sciimmunol.aal2200	journal	January 2017
Dense Array of Spikes on HIV-1 Virion Particles Stano, Armando; Leaman, Daniel P.; Kim, Arthur S. Journal of Virology, Vol. 91, Issue 14 https://doi.org/10.1128/jvi.00415-17	journal	April 2017
Broadly Neutralizing Monoclonal Antibodies 2F5 and 4E10 Directed against the Human Immunodeficiency Virus Type 1 gp41 Membrane-Proximal External Region Protect against Mucosal Challenge by Simian-Human Immunodeficiency Virus SHIVBa-L Hessell, A. J.; Rakasz, E. G.; Tehrani, D. M. Journal of Virology, Vol. 84, Issue 3 https://doi.org/10.1128/jvi.01272-09	journal	November 2009
4E10-Resistant Variants in a Human Immunodeficiency Virus Type 1 Subtype C-Infected Individual with an Anti-Membrane-Proximal External Region-Neutralizing Antibody Response Gray, Elin S.; Moore, Penny L.; Bibollet-Ruche, Frederic Journal of Virology, Vol. 82, Issue 5 https://doi.org/10.1128/jvi.02161-07	journal	December 2007
Functional Optimization of Broadly Neutralizing HIV-1 Antibody 10E8 by Promotion of Membrane Interactions Rujas, Edurne; Leaman, Daniel P.; Insausti, Sara Journal of Virology, Vol. 92, Issue 8 https://doi.org/10.1128/jvi.02249-17	journal	January 2018
Broadly Neutralizing Antibodies to HIV and Their Role in Vaccine Design Burton, Dennis R.; Hangartner, Lars Annual Review of Immunology, Vol. 34, Issue 1 https://doi.org/10.1146/annurev-immunol-041015-055515	journal	May 2016
4E10-Resistant HIV-1 Isolated from Four Subjects with Rare Membrane-Proximal External Region Polymorphisms Nakamura, Kyle J.; Gach, Johannes S.; Jones, Laura PLoS ONE, Vol. 5, Issue 3 https://doi.org/10.1371/journal.pone.0009786	journal	March 2010
Developmental Pathway of the MPER-Directed HIV-1-Neutralizing Antibody 10E8 Soto, Cinque; Ofek, Gilad; Joyce, M. Gordon PLOS ONE, Vol. 11, Issue 6 https://doi.org/10.1371/journal.pone.0157409	journal	June 2016
The Number of Overlapping AID Hotspots in Germline IGHV Genes Is Inversely Correlated with Mutation Frequency in Chronic Lymphocytic Leukemia Yuan, Chaohui; Chu, Charles C.; Yan, Xiao-Jie PLOS ONE, Vol. 12, Issue 1 https://doi.org/10.1371/journal.pone.0167602	journal	January 2017
Envelope Deglycosylation Enhances Antigenicity of HIV-1 gp41 Epitopes for Both Broad Neutralizing Antibodies and Their Unmutated Ancestor Antibodies Ma, Ben-Jiang; Alam, S. Munir; Go, Eden P. PLoS Pathogens, Vol. 7, Issue 9 https://doi.org/10.1371/journal.ppat.1002200	journal	September 2011
A Next-Generation Cleaved, Soluble HIV-1 Env Trimer, BG505 SOSIP.664 gp140, Expresses Multiple Epitopes for Broadly Neutralizing but Not Non-Neutralizing Antibodies Sanders, Rogier W.; Derking, Ronald; Cupo, Albert PLoS Pathogens, Vol. 9, Issue 9, Article No. e1003618 https://doi.org/10.1371/journal.ppat.1003618	journal	September 2013
Antibody to gp41 MPER Alters Functional Properties of HIV-1 Env without Complete Neutralization Kim, Arthur S.; Leaman, Daniel P.; Zwick, Michael B. PLoS Pathogens, Vol. 10, Issue 7 https://doi.org/10.1371/journal.ppat.1004271	journal	July 2014
Ontogeny of Recognition Specificity and Functionality for the Broadly Neutralizing Anti-HIV Antibody 4E10 Finton, Kathryn A. K.; Friend, Della; Jaffe, James PLoS Pathogens, Vol. 10, Issue 9 https://doi.org/10.1371/journal.ppat.1004403	journal	September 2014
Lipid interactions and angle of approach to the HIV-1 viral membrane of broadly neutralizing antibody 10E8: Insights for vaccine and therapeutic design Irimia, Adriana; Serra, Andreia M.; Sarkar, Anita PLOS Pathogens, Vol. 13, Issue 2 https://doi.org/10.1371/journal.ppat.1006212	journal	February 2017
Immunologic Insights on the Membrane Proximal External Region: A Major Human Immunodeficiency Virus Type-1 Vaccine Target Molinos-Albert, Luis M.; Clotet, Bonaventura; Blanco, Julià Frontiers in Immunology, Vol. 8 https://doi.org/10.3389/fimmu.2017.01154	journal	September 2017
Immune Tolerance Negatively Regulates B Cells in Knock-In Mice Expressing Broadly Neutralizing HIV Antibody 4E10 Doyle-Cooper, Colleen; Hudson, Krystalyn E.; Cooper, Anthony B. The Journal of Immunology, Vol. 191, Issue 6 https://doi.org/10.4049/jimmunol.1301285	journal	August 2013
Development of the Expressed Ig CDR-H3 Repertoire Is Marked by Focusing of Constraints in Length, Amino Acid Use, and Charge That Are First Established in Early B Cell Progenitors Ivanov, Ivaylo I.; Schelonka, Robert L.; Zhuang, Yingxin The Journal of Immunology, Vol. 174, Issue 12 https://doi.org/10.4049/jimmunol.174.12.7773	journal	June 2005
New tools for automated high-resolution cryo-EM structure determination in RELION-3 Zivanov, Jasenko; Nakane, Takanori; Forsberg, Björn O. eLife, Vol. 7 https://doi.org/10.7554/elife.42166	journal	November 2018
Somatic Hypermutations Confer Rheumatoid Factor Activity in Hepatitis C Virus-Associated Mixed Cryoglobulinemia: HCV-Associated Hypermutated Rheumatoid Factors Charles, Edgar D.; Orloff, Michael I. M.; Nishiuchi, Eiko Arthritis & Rheumatism, Vol. 65, Issue 9 https://doi.org/10.1002/art.38041	journal	August 2013
CHARMM: The biomolecular simulation program Brooks, B. R.; Brooks, C. L.; Mackerell, A. D. Journal of Computational Chemistry, Vol. 30, Issue 10 https://doi.org/10.1002/jcc.21287	journal	July 2009
Synthesis and analysis of the membrane proximal external region epitopes of HIV-1: GP41 MPER MIMETICS Ingale, Sampat; Gach, Johannes S.; Zwick, Michael B. Journal of Peptide Science, Vol. 16, Issue 12 https://doi.org/10.1002/psc.1325	journal	November 2010
[20] Processing of X-ray diffraction data collected in oscillation mode Otwinowski, Zbyszek; Minor, Wladek Macromolecular Crystallography Part A, 307-326 https://doi.org/10.1016/S0076-6879(97)76066-X	book	January 1997
Leginon: a system for fully automated acquisition of 1000 electron micrographs a day Potter, C. S.; Chu, H.; Frey, B. Ultramicroscopy, Vol. 77, Issue 3-4 https://doi.org/10.1016/S0304-3991(99)00043-1	journal	July 1999
Somatic Mutations of the Immunoglobulin Framework Are Generally Required for Broad and Potent HIV-1 Neutralization Klein, Florian; Diskin, Ron; Scheid, Johannes F. Cell, Vol. 153, Issue 1 https://doi.org/10.1016/j.cell.2013.03.018	journal	March 2013
Antibody 27F3 Broadly Targets Influenza A Group 1 and 2 Hemagglutinins through a Further Variation in V H 1-69 Antibody Orientation on the HA Stem Lang, Shanshan; Xie, Jia; Zhu, Xueyong Cell Reports, Vol. 20, Issue 12 https://doi.org/10.1016/j.celrep.2017.08.084	journal	September 2017
Structural Determination of the Broadly Reactive Anti- IGHV1-69 Anti-idiotypic Antibody G6 and Its Idiotope Avnir, Yuval; Prachanronarong, Kristina L.; Zhang, Zhen Cell Reports, Vol. 21, Issue 11 https://doi.org/10.1016/j.celrep.2017.11.056	journal	December 2017
Surface-Matrix Screening Identifies Semi-specific Interactions that Improve Potency of a Near Pan-reactive HIV-1-Neutralizing Antibody Kwon, Young D.; Chuang, Gwo-Yu; Zhang, Baoshan Cell Reports, Vol. 22, Issue 7 https://doi.org/10.1016/j.celrep.2018.01.023	journal	February 2018
Co-evolution of HIV Envelope and Apex-Targeting Neutralizing Antibody Lineage Provides Benchmarks for Vaccine Design Rantalainen, Kimmo; Berndsen, Zachary T.; Murrell, Sasha Cell Reports, Vol. 23, Issue 11 https://doi.org/10.1016/j.celrep.2018.05.046	journal	June 2018
Broadly Neutralizing Anti-HIV Antibody 4E10 Recognizes a Helical Conformation of a Highly Conserved Fusion-Associated Motif in gp41 Cardoso, Rosa M. F.; Zwick, Michael B.; Stanfield, Robyn L. Immunity, Vol. 22, Issue 2 https://doi.org/10.1016/j.immuni.2004.12.011	journal	February 2005
Identification of Common Features in Prototype Broadly Neutralizing Antibodies to HIV Envelope V2 Apex to Facilitate Vaccine Design Andrabi, Raiees; Voss, James E.; Liang, Chi-Hui Immunity, Vol. 43, Issue 5 https://doi.org/10.1016/j.immuni.2015.10.014	journal	November 2015
Crystallographic Identification of Lipid as an Integral Component of the Epitope of HIV Broadly Neutralizing Antibody 4E10 Irimia, Adriana; Sarkar, Anita; Stanfield, Robyn L. Immunity, Vol. 44, Issue 1 https://doi.org/10.1016/j.immuni.2015.12.001	journal	January 2016
Key gp120 Glycans Pose Roadblocks to the Rapid Development of VRC01-Class Antibodies in an HIV-1-Infected Chinese Donor Kong, Leopold; Ju, Bin; Chen, Yajing Immunity, Vol. 44, Issue 4 https://doi.org/10.1016/j.immuni.2016.03.006	journal	April 2016
HIV Envelope Glycoform Heterogeneity and Localized Diversity Govern the Initiation and Maturation of a V2 Apex Broadly Neutralizing Antibody Lineage Landais, Elise; Murrell, Ben; Briney, Bryan Immunity, Vol. 47, Issue 5 https://doi.org/10.1016/j.immuni.2017.11.002	journal	November 2017
HIV-1 Vaccines Based on Antibody Identification, B Cell Ontogeny, and Epitope Structure Kwong, Peter D.; Mascola, John R. Immunity, Vol. 48, Issue 5 https://doi.org/10.1016/j.immuni.2018.04.029	journal	May 2018
Longitudinal Analysis Reveals Early Development of Three MPER-Directed Neutralizing Antibody Lineages from an HIV-1-Infected Individual Krebs, Shelly J.; Kwon, Young D.; Schramm, Chaim A. Immunity, Vol. 50, Issue 3 https://doi.org/10.1016/j.immuni.2019.02.008	journal	March 2019
Functional Contacts between MPER and the Anti-HIV-1 Broadly Neutralizing Antibody 4E10 Extend into the Core of the Membrane Rujas, Edurne; Insausti, Sara; García-Porras, Miguel Journal of Molecular Biology, Vol. 429, Issue 8 https://doi.org/10.1016/j.jmb.2017.03.008	journal	April 2017
DoG Picker and TiltPicker: Software tools to facilitate particle selection in single particle electron microscopy Voss, N. R.; Yoshioka, C. K.; Radermacher, M. Journal of Structural Biology, Vol. 166, Issue 2 https://doi.org/10.1016/j.jsb.2009.01.004	journal	May 2009
Gctf: Real-time CTF determination and correction Zhang, Kai Journal of Structural Biology, Vol. 193, Issue 1 https://doi.org/10.1016/j.jsb.2015.11.003	journal	January 2016
Computational Design of Epitope-Scaffolds Allows Induction of Antibodies Specific for a Poorly Immunogenic HIV Vaccine Epitope Correia, Bruno E.; Ban, Yih-En Andrew; Holmes, Margaret A. Structure, Vol. 18, Issue 9 https://doi.org/10.1016/j.str.2010.06.010	journal	September 2010
Broad and potent neutralization of HIV-1 by a gp41-specific human antibody Huang, Jinghe; Ofek, Gilad; Laub, Leo Nature, Vol. 491, Issue 7424 https://doi.org/10.1038/nature11544	journal	September 2012
Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus Liao, Hua-Xin; Lynch, Rebecca; Zhou, Tongqing Nature, Vol. 496, Issue 7446 https://doi.org/10.1038/nature12053	journal	April 2013
Bioinformatics prediction of HIV coreceptor usage Lengauer, Thomas; Sander, Oliver; Sierra, Saleta Nature Biotechnology, Vol. 25, Issue 12 https://doi.org/10.1038/nbt1371	journal	December 2007
cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination Punjani, Ali; Rubinstein, John L.; Fleet, David J. Nature Methods, Vol. 14, Issue 3 https://doi.org/10.1038/nmeth.4169	journal	February 2017
MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy Zheng, Shawn Q.; Palovcak, Eugene; Armache, Jean-Paul Nature Methods, Vol. 14, Issue 4 https://doi.org/10.1038/nmeth.4193	journal	February 2017
An HIV-1 antibody from an elite neutralizer implicates the fusion peptide as a site of vulnerability van Gils, Marit J.; van den Kerkhof, Tom L. G. M.; Ozorowski, Gabriel Nature Microbiology, Vol. 2, Issue 2 https://doi.org/10.1038/nmicrobiol.2016.199	journal	November 2016
Systematic discovery of pseudomonad genetic factors involved in sensitivity to tailocins Carim, Sean; Azadeh, Ashley L.; Kazakov, Alexey E. The ISME Journal, Vol. 15, Issue 8 https://doi.org/10.1038/s41396-021-00921-1	journal	March 2021
Structure of a cleavage-independent HIV Env recapitulates the glycoprotein architecture of the native cleaved trimer Sarkar, Anita; Bale, Shridhar; Behrens, Anna-Janina Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-04272-y	journal	May 2018
Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer Cao, Liwei; Pauthner, Matthias; Andrabi, Raiees Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-06121-4	journal	September 2018
PARP1 exhibits enhanced association and catalytic efficiency with γH2A.X-nucleosome Sharma, Deepti; De Falco, Louis; Padavattan, Sivaraman Nature Communications, Vol. 10, Issue 1 https://doi.org/10.1038/s41467-019-13641-0	journal	December 2019
Cavin1 intrinsically disordered domains are essential for fuzzy electrostatic interactions and caveola formation Tillu, Vikas A.; Rae, James; Gao, Ya Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-021-21035-4	journal	February 2021
Insights on autophagosome–lysosome tethering from structural and biochemical characterization of human autophagy factor EPG5 Nam, Sung-Eun; Cheung, Yiu Wing Sunny; Nguyen, Thanh Ngoc Communications Biology, Vol. 4, Issue 1 https://doi.org/10.1038/s42003-021-01830-x	journal	March 2021
Toward a more accurate view of human B-cell repertoire by next-generation sequencing, unbiased repertoire capture and single-molecule barcoding He, Linling; Sok, Devin; Azadnia, Parisa Scientific Reports, Vol. 4, Issue 1 https://doi.org/10.1038/srep06778	journal	October 2014
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability Katoh, K.; Standley, D. M. Molecular Biology and Evolution, Vol. 30, Issue 4 https://doi.org/10.1093/molbev/mst010	journal	January 2013
Phaser crystallographic software McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D. Journal of Applied Crystallography, Vol. 40, Issue 4 https://doi.org/10.1107/S0021889807021206	journal	July 2007
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/S0907444909047337	journal	January 2010
PHENIX: a comprehensive Python-based system for macromolecular structure solution Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2, p. 213-221 https://doi.org/10.1107/S0907444909052925	journal	January 2010
Features and development of Coot Emsley, P.; Lohkamp, B.; Scott, W. G. Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 4 https://doi.org/10.1107/S0907444910007493	journal	March 2010
Comparative lipidomics analysis of HIV-1 particles and their producer cell membrane in different cell lines: Lipidomics of HIV-1 particles and producer plasma membranes Lorizate, Maier; Sachsenheimer, Timo; Glass, Bärbel Cellular Microbiology, Vol. 15, Issue 2 https://doi.org/10.1111/cmi.12101	journal	January 2013
Cardiolipin Polyspecific Autoreactivity in Two Broadly Neutralizing HIV-1 Antibodies Haynes, B. F. Science, Vol. 308, Issue 5730 https://doi.org/10.1126/science.1111781	journal	June 2005
Hepatitis C Virus E2 Envelope Glycoprotein Core Structure Kong, L.; Giang, E.; Nieusma, T. Science, Vol. 342, Issue 6162 https://doi.org/10.1126/science.1243876	journal	November 2013
Cryo-EM structure of a native, fully glycosylated, cleaved HIV-1 envelope trimer Lee, J. H.; Ozorowski, G.; Ward, A. B. Science, Vol. 351, Issue 6277 https://doi.org/10.1126/science.aad2450	journal	March 2016
HIV-1 broadly neutralizing antibody precursor B cells revealed by germline-targeting immunogen Jardine, J. G.; Kulp, D. W.; Havenar-Daughton, C. Science, Vol. 351, Issue 6280 https://doi.org/10.1126/science.aad9195	journal	March 2016
Potent and broad HIV-neutralizing antibodies in memory B cells and plasma Williams, LaTonya D.; Ofek, Gilad; Schätzle, Sebastian Science Immunology, Vol. 2, Issue 7 https://doi.org/10.1126/sciimmunol.aal2200	journal	January 2017
Human Immunodeficiency Virus Type 1 Elite Neutralizers: Individuals with Broad and Potent Neutralizing Activity Identified by Using a High-Throughput Neutralization Assay together with an Analytical Selection Algorithm Simek, M. D.; Rida, W.; Priddy, F. H. Journal of Virology, Vol. 83, Issue 14 https://doi.org/10.1128/JVI.00110-09	journal	May 2009
Dense Array of Spikes on HIV-1 Virion Particles Stano, Armando; Leaman, Daniel P.; Kim, Arthur S. Journal of Virology, Vol. 91, Issue 14 https://doi.org/10.1128/JVI.00415-17	journal	April 2017
Broadly Neutralizing Monoclonal Antibodies 2F5 and 4E10 Directed against the Human Immunodeficiency Virus Type 1 gp41 Membrane-Proximal External Region Protect against Mucosal Challenge by Simian-Human Immunodeficiency Virus SHIVBa-L Hessell, A. J.; Rakasz, E. G.; Tehrani, D. M. Journal of Virology, Vol. 84, Issue 3 https://doi.org/10.1128/JVI.01272-09	journal	November 2009
Broad Neutralization of Human Immunodeficiency Virus Type 1 Mediated by Plasma Antibodies against the gp41 Membrane Proximal External Region Gray, E. S.; Madiga, M. C.; Moore, P. L. Journal of Virology, Vol. 83, Issue 21 https://doi.org/10.1128/JVI.01359-09	journal	August 2009
4E10-Resistant Variants in a Human Immunodeficiency Virus Type 1 Subtype C-Infected Individual with an Anti-Membrane-Proximal External Region-Neutralizing Antibody Response Gray, Elin S.; Moore, Penny L.; Bibollet-Ruche, Frederic Journal of Virology, Vol. 82, Issue 5 https://doi.org/10.1128/JVI.02161-07	journal	December 2007
Functional Optimization of Broadly Neutralizing HIV-1 Antibody 10E8 by Promotion of Membrane Interactions Rujas, Edurne; Leaman, Daniel P.; Insausti, Sara Journal of Virology, Vol. 92, Issue 8 https://doi.org/10.1128/JVI.02249-17	journal	January 2018
Anti-Human Immunodeficiency Virus Type 1 (HIV-1) Antibodies 2F5 and 4E10 Require Surprisingly Few Crucial Residues in the Membrane-Proximal External Region of Glycoprotein gp41 To Neutralize HIV-1 Zwick, M. B.; Jensen, R.; Church, S. Journal of Virology, Vol. 79, Issue 2 https://doi.org/10.1128/JVI.79.2.1252-1261.2005	journal	December 2004
Broadly Neutralizing Antibodies to HIV and Their Role in Vaccine Design Burton, Dennis R.; Hangartner, Lars Annual Review of Immunology, Vol. 34, Issue 1 https://doi.org/10.1146/annurev-immunol-041015-055515	journal	May 2016
4E10-Resistant HIV-1 Isolated from Four Subjects with Rare Membrane-Proximal External Region Polymorphisms Nakamura, Kyle J.; Gach, Johannes S.; Jones, Laura PLoS ONE, Vol. 5, Issue 3 https://doi.org/10.1371/journal.pone.0009786	journal	March 2010
Developmental Pathway of the MPER-Directed HIV-1-Neutralizing Antibody 10E8 Soto, Cinque; Ofek, Gilad; Joyce, M. Gordon PLOS ONE, Vol. 11, Issue 6 https://doi.org/10.1371/journal.pone.0157409	journal	June 2016
The Number of Overlapping AID Hotspots in Germline IGHV Genes Is Inversely Correlated with Mutation Frequency in Chronic Lymphocytic Leukemia Yuan, Chaohui; Chu, Charles C.; Yan, Xiao-Jie PLOS ONE, Vol. 12, Issue 1 https://doi.org/10.1371/journal.pone.0167602	journal	January 2017
Envelope Deglycosylation Enhances Antigenicity of HIV-1 gp41 Epitopes for Both Broad Neutralizing Antibodies and Their Unmutated Ancestor Antibodies Ma, Ben-Jiang; Alam, S. Munir; Go, Eden P. PLoS Pathogens, Vol. 7, Issue 9 https://doi.org/10.1371/journal.ppat.1002200	journal	September 2011
Increased Functional Stability and Homogeneity of Viral Envelope Spikes through Directed Evolution Leaman, Daniel P.; Zwick, Michael B. PLoS Pathogens, Vol. 9, Issue 2 https://doi.org/10.1371/journal.ppat.1003184	journal	February 2013
A Next-Generation Cleaved, Soluble HIV-1 Env Trimer, BG505 SOSIP.664 gp140, Expresses Multiple Epitopes for Broadly Neutralizing but Not Non-Neutralizing Antibodies Sanders, Rogier W.; Derking, Ronald; Cupo, Albert PLoS Pathogens, Vol. 9, Issue 9, Article No. e1003618 https://doi.org/10.1371/journal.ppat.1003618	journal	September 2013
Antibody to gp41 MPER Alters Functional Properties of HIV-1 Env without Complete Neutralization Kim, Arthur S.; Leaman, Daniel P.; Zwick, Michael B. PLoS Pathogens, Vol. 10, Issue 7 https://doi.org/10.1371/journal.ppat.1004271	journal	July 2014
Ontogeny of Recognition Specificity and Functionality for the Broadly Neutralizing Anti-HIV Antibody 4E10 Finton, Kathryn A. K.; Friend, Della; Jaffe, James PLoS Pathogens, Vol. 10, Issue 9 https://doi.org/10.1371/journal.ppat.1004403	journal	September 2014
Lipid interactions and angle of approach to the HIV-1 viral membrane of broadly neutralizing antibody 10E8: Insights for vaccine and therapeutic design Irimia, Adriana; Serra, Andreia M.; Sarkar, Anita PLOS Pathogens, Vol. 13, Issue 2 https://doi.org/10.1371/journal.ppat.1006212	journal	February 2017
Similarities and differences between native HIV-1 envelope glycoprotein trimers and stabilized soluble trimer mimetics Torrents de la Peña, Alba; Rantalainen, Kimmo; Cottrell, Christopher A. PLOS Pathogens, Vol. 15, Issue 7 https://doi.org/10.1371/journal.ppat.1007920	journal	July 2019
Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus Jenny, McDowell,; Quino, Maduro,; Jiang, Zhu, The University of North Carolina at Chapel Hill University Libraries https://doi.org/10.17615/krmn-eg43	text	January 2013
PHENIX: a comprehensive Python-based system for macromolecular structure solution. Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor Apollo - University of Cambridge Repository https://doi.org/10.17863/cam.45787	text	January 2010
Antibody polyspecificity and neutralization of HIV-1: A hypothesis Haynes, Barton F.; Moody, M. Anthony; Verkoczy, Laurent Human Antibodies, Vol. 14, Issue 3-4 https://doi.org/10.3233/HAB-2005-143-402	journal	May 2006
Hidden Lineage Complexity of Glycan-Dependent HIV-1 Broadly Neutralizing Antibodies Uncovered by Digital Panning and Native-Like gp140 Trimer He, Linling; Lin, Xiaohe; de Val, Natalia Frontiers in Immunology, Vol. 8 https://doi.org/10.3389/fimmu.2017.01025	journal	August 2017
Immunologic Insights on the Membrane Proximal External Region: A Major Human Immunodeficiency Virus Type-1 Vaccine Target Molinos-Albert, Luis M.; Clotet, Bonaventura; Blanco, Julià Frontiers in Immunology, Vol. 8 https://doi.org/10.3389/fimmu.2017.01154	journal	September 2017
Immune Tolerance Negatively Regulates B Cells in Knock-In Mice Expressing Broadly Neutralizing HIV Antibody 4E10 Doyle-Cooper, Colleen; Hudson, Krystalyn E.; Cooper, Anthony B. The Journal of Immunology, Vol. 191, Issue 6 https://doi.org/10.4049/jimmunol.1301285	journal	August 2013
Development of the Expressed Ig CDR-H3 Repertoire Is Marked by Focusing of Constraints in Length, Amino Acid Use, and Charge That Are First Established in Early B Cell Progenitors Ivanov, Ivaylo I.; Schelonka, Robert L.; Zhuang, Yingxin The Journal of Immunology, Vol. 174, Issue 12 https://doi.org/10.4049/jimmunol.174.12.7773	journal	June 2005
CHARMM: the biomolecular simulation program Brooks, B. R.; Brooks, C. L.; Mackerell, A. D. Wiley-Blackwell https://doi.org/10.5167/uzh-19245	text	January 2009
New tools for automated high-resolution cryo-EM structure determination in RELION-3 Zivanov, Jasenko; Nakane, Takanori; Forsberg, Björn O. eLife, Vol. 7 https://doi.org/10.7554/eLife.42166	journal	November 2018
Developmental Pathway of the MPER-Directed HIV-1-Neutralizing Antibody 10E8 Soto, Cinque; Ofek, Gilad; Joyce, M. Gordon Columbia University https://doi.org/10.7916/d82f7nn5	text	January 2016

Similar Records

Structural basis for germline antibody recognition of HIV-1 immunogens

Journal Article · 2016 · eLife · OSTI ID:1628850

Scharf, Louise; West, Anthony P.; Sievers, Stuart A.; +9 more

Lipid interactions and angle of approach to the HIV-1 viral membrane of broadly neutralizing antibody 10E8: Insights for vaccine and therapeutic design

Journal Article · 2017 · PLoS Pathogens · OSTI ID:1368249

Irimia, Adriana; Serra, Andreia M.; Sarkar, Anita; +13 more

Potent and broad HIV-neutralizing antibodies in memory B cells and plasma

Journal Article · 2017 · Science Immunology · OSTI ID:1460631

Williams, LaTonya D.; Ofek, Gilad; Schatzle, Sebastian; +38 more

Related Subjects

60 APPLIED LIFE SCIENCES
Antibodies
HIV infections
Vaccines
X-ray crystallography

Title: An MPER antibody neutralizes HIV-1 using germline features shared among donors

Citation Formats

References (115)

Similar Records

Related Subjects