Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Potent and broad HIV-1 neutralization in fusion peptide-primed SHIV-infected macaques.
Journal, issue, pages	Cell, Vol. 187, Issue 25, Page 7214-7231.e23, Year 2024
Publish date	Dec 12, 2024
Authors	Hua Wang / Cheng Cheng / James L Dal Santo / Chen-Hsiang Shen / Tatsiana Bylund / Amy R Henry / Colin A Howe / Juyun Hwang / Nicholas C Morano / Daniel J Morris / Sergei Pletnev / Ryan S Roark / Tongqing Zhou / Bryan T Hansen / Forrest H Hoyt / Timothy S Johnston / Shuyi Wang / Baoshan Zhang / David R Ambrozak / Jordan E Becker / Michael F Bender / Anita Changela / Ridhi Chaudhary / Martin Corcoran / Angela R Corrigan / Kathryn E Foulds / Yicheng Guo / Myungjin Lee / Yingying Li / Bob C Lin / Tracy Liu / Mark K Louder / Marco Mandolesi / Rosemarie D Mason / Krisha McKee / Vinod Nair / Sijy O'Dell / Adam S Olia / Li Ou / Amarendra Pegu / Nagarajan Raju / Reda Rawi / Jesmine Roberts-Torres / Edward K Sarfo / Mallika Sastry / Andrew J Schaub / Stephen D Schmidt / Chaim A Schramm / Cindi L Schwartz / Sarah C Smith / Tyler Stephens / Jonathan Stuckey / I-Ting Teng / John-Paul Todd / Yaroslav Tsybovsky / David J Van Wazer / Shuishu Wang / Nicole A Doria-Rose / Elizabeth R Fischer / Ivelin S Georgiev / Gunilla B Karlsson Hedestam / Zizhang Sheng / Ruth A Woodward / Daniel C Douek / Richard A Koup / Theodore C Pierson / Lawrence Shapiro / George M Shaw / John R Mascola / Peter D Kwong /
PubMed Abstract	An antibody-based HIV-1 vaccine will require the induction of potent cross-reactive HIV-1-neutralizing responses. To demonstrate feasibility toward this goal, we combined vaccination targeting the ...An antibody-based HIV-1 vaccine will require the induction of potent cross-reactive HIV-1-neutralizing responses. To demonstrate feasibility toward this goal, we combined vaccination targeting the fusion-peptide site of vulnerability with infection by simian-human immunodeficiency virus (SHIV). In four macaques with vaccine-induced neutralizing responses, SHIV infection boosted plasma neutralization to 45%-77% breadth (geometric mean 50% inhibitory dilution [ID] ∼100) on a 208-strain panel. Molecular dissection of these responses by antibody isolation and cryo-electron microscopy (cryo-EM) structure determination revealed 15 of 16 antibody lineages with cross-clade neutralization to be directed toward the fusion-peptide site of vulnerability. In each macaque, isolated antibodies from memory B cells recapitulated the plasma-neutralizing response, with fusion-peptide-binding antibodies reaching breadths of 40%-60% (50% inhibitory concentration [IC] < 50 μg/mL) and total lineage-concentrations estimates of 50-200 μg/mL. Longitudinal mapping indicated that these responses arose prior to SHIV infection. Collectively, these results provide in vivo molecular examples for one to a few B cell lineages affording potent, broadly neutralizing plasma responses.
External links	Cell / PubMed:39471811 / PubMed Central
Methods	EM (single particle) / X-ray diffraction
Resolution	2.09 - 4.03 Å
Structure data	41309 8tjr EMDB-41309: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO HERH-c.01 FAB PDB-8tjr: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO HERH-a.01 FAB Method: EM (single particle) / Resolution: 3.29 Å 41310 8tjs EMDB-41310, PDB-8tjs: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO GPZ6-a.01 FAB Method: EM (single particle) / Resolution: 3.31 Å 41346 8tkc EMDB-41346, PDB-8tkc: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-b.01 FAB Method: EM (single particle) / Resolution: 3.1 Å 41359 8tl2 EMDB-41359, PDB-8tl2: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-c.01 FAB Method: EM (single particle) / Resolution: 3.2 Å 41360 8tl3 EMDB-41360, PDB-8tl3: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-d.01 FAB Method: EM (single particle) / Resolution: 3.1 Å 41361 8tl4 EMDB-41361, PDB-8tl4: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-e.01 FAB Method: EM (single particle) / Resolution: 3.2 Å 41362 8tl5 EMDB-41362, PDB-8tl5: CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO HERH-c.01 FAB Method: EM (single particle) / Resolution: 3.3 Å 41426 8tnu EMDB-41426, PDB-8tnu: Cryo-EM structure of *TRNM-b01 Fab in complex with HIV-1 Env trimer BG505.DS SOSIP Method: EM (single particle) / Resolution: 3.36 Å 41438 8to7 EMDB-41438, PDB-8to7: Cryo-EM structure of HERH-b01* Fab in complex with HIV-1 Env trimer BG505.DS SOSIP Method: EM (single particle) / Resolution: 3.39 Å 41440 8to9 EMDB-41440, PDB-8to9: Cryo-EM structure of *TRNM-f01 Fab in complex with HIV-1 Env trimer ConC SOSIP Method: EM (single particle) / Resolution: 4.03 Å 41459 8top EMDB-41459, PDB-8top: Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with antibody GPZ6-b.01 targeting the fusion peptide Method: EM (single particle) / Resolution: 3.52 Å PDB-8tdx: TRNM-b.01 in complex with HIV Env fusion peptide Method: X-RAY DIFFRACTION / Resolution: 2.09 Å PDB-8te7: Structure of TRNM-f.01 Method: X-RAY DIFFRACTION / Resolution**: 3.18 Å
Chemicals	ChemComp-HOH: WATER ChemComp-NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
Source	homo sapiens (human) macaca (macaques) human immunodeficiency virus 1 macaca mulatta (Rhesus monkey)
Keywords	IMMUNE SYSTEM / HIV-1 / Fusion Peptide / Antibody / Fab / CD4 Binding Site / Viral Protein/Immune System / SHIV / Viral Protein-Immune System complex / broadly neutralizing antibody / glycoprotein / viral protein / FP-targeting vaccines / Vaccination / HIV-1 Envelope / GPZ6-b.01 / BG505 DS-SOSIP / neutralization / immunization