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. Author manuscript; available in PMC: 2019 Jun 13.
Published in final edited form as: Cell Host Microbe. 2018 Jun 13;23(6):832–844.e6. doi: 10.1016/j.chom.2018.05.002
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
Monoclonal anti-HIV-1 Gp120 2G12 NIH AIDS Reagent Program Cat# 1476
Monoclonal anti-HIV-1 Gp120 b12 NIH AIDS Reagent Program Cat# 2640
Monoclonal anti-HIV-1 Gp120 VRC01 NIH AIDS Reagent Program Cat# 12033; RRID: AB_2491019
Monoclonal anti-HIV-1 Gp120 F105 NIH AIDS Reagent Program; Cat# 857
Monoclonal anti-HIV-1 Gp120 PGT121 John R. Mascola, VRC, NIH N/A
Monoclonal anti-HIV-1 Gp120 PG9 John R. Mascola, VRC, NIH N/A
Monoclonal anti-HIV-1 Gp120 PG16 John R. Mascola, VRC, NIH N/A
Monoclonal anti-HIV-1 Gp120 PGT145 John R. Mascola, VRC, NIH N/A
Monoclonal anti-HIV-1 Gp120 CH01 NIH AIDS Reagent Program Cat# 12561; RRID: AB_2491055
Monoclonal anti-HIV-1 Gp120 CAP256.09 (VRC26.03) John R. Mascola, VRC, NIH N/A
Monoclonal anti-HIV-1 Gp120 PGT151 John R. Mascola, VRC, NIH N/A
Monoclonal anti-HIV-1 Gp120 35O22 NIH AIDS Reagent Program Cat# 12586
Monoclonal anti-HIV-1 Gp120 8ANC195 Michel C. Nussenzweig, Rockefeller University RRID: AB_2491037
Monoclonal anti-HIV-1 Gp120 447-52D NIH AIDS Reagent Program Cat# 4030
Monoclonal anti-HIV-1 Gp120 19b NIH AIDS Reagent Program Cat# 11436
Monoclonal anti-HIV-1 Gp120 48d NIH AIDS Reagent Program Cat# 1756
Monoclonal anti-HIV-1 Gp120 412d John R. Mascola, VRC, NIH N/A
Goat anti-human IgG-PE SouthernBiotech Cat# 2040-09
HRP-conjugated anti-human IgG, Fcr fragment Ab Jackson ImmunoResearch Cat# 109-035-008
Peroxidase AffiniPure Donkey Anti-Rabbit IgG Jackson ImmunoResearch Cat# 711-035-152
     
Bacterial and Virus Strains
NEB 5 – alpha Competent E. coli New England BioLabs Cat# C2987H
     
Biological Samples
     
Chemicals, Peptides, and Recombinant Proteins
Lectin from Galanthus nivalis SIGMA-ALDRICH Cat# L8275-5MG
BG505.T332N.SOSIP.664 gp140 trimer This study N/A
BG505.T332N.SOSIP.664.113C.429GCG gp140 trimer This study N/A
BG505.T332N.SOSIP.664.113C.431GCG gp140 trimer This study N/A
JR-FL.SOSIP.664 gp140 trimer This study N/A
JR-FL.SOSIP.664.113C.432GCG gp140 trimer This study N/A
DU422.SOSIP.664 gp140 trimer This study N/A
DU422.SOSIP.664.113C.432GCG gp140 trimer This study N/A
M48U1 Loic Martin, CEA (Martin et., 2003) N/A
Recombinant Human sCD4 Protein R&D Systems Cat# 514-CD
Recombinant CD4-Ig2 NIH AIDS Reagent Program Cat# 11780
     
Critical Commercial Assays
Luciferase 1000 Assay System Promega Cat# E4550
QuickChange II Site-Directed Mutagenesis Kit Agilent Cat# 200524
     
Deposited Data
BG505.113C-429GCG bound to PGT122 Fab and 35O22 Fab This study PDB: 6DE7; Deposition ID: D_1000233685
     
Experimental Models: Cell Lines
Human: HEK 293T, female ATCC Cat# CRL-3216
Human: HeLa-derived TZM-bl, female NIH AIDS Reagent Program Cat# 8129-442
Human: HEK 293FS (FreeStyle), female Thermo Fisher Cat# R79007
     
Experimental Models: Organisms/Strains
New Zealand white rabbits, female Purchased from USDA-licensed breeders by Pocono Farm & Laborator y Animals were identified by implanted ear clips
     
Oligonucleotides
     
Recombinant DNA
Plasmids pPPI4-BG505.T332N.SOSIP.664 John P. Moore, Weill-Cornell Medical College (Sanders et al., 2013) N/A
Plasmids pPPI4-DU422.K295N.D386N.SOSIP.664 John P. Moore, Weill-Cornell Medical College (Julien et al., 2015) N/A
Plasmids pVRC8400-JR-FL.SOSIP.664 Peter Kwong, NIH (Stewart-Jones et al., 2016) N/A
Plasmids HIV-1 BG505 env expression vector NIH AIDS Reagent Program Cat# 11518
Plasmids pCAGGS HIV-1 JR-FL gp160 expression plasmids James Binley, San Diego Biomedical Research Institute (Binley et al., 2003) N/A
Plasmids pCDNA3.1 HIV-1 clone BaL.26 NIH AIDS Reagent Program Cat# 11518
Plasmids pSG3 ∆env NIH AIDS Reagent Program Cat# 11051
Plasmids Panel of Global HIV 1 Env Clones NIH AIDS Reagent Program Cat# 12670
     
Software and Algorithms
FlowJo v.9.9.4 FlowJo, LLC https://www.www.flowjo.com; RRID: SCR_008520
IMGT/V-QUEST International ImMunoGeneTics
Information System; Marie-Paule
Lefranc (marie-paule.lefranc@igh.cnrs.fr), University of Montpellier, France
www.imgt.org; RRID: SCR_012780
Pymol The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC. https://pymol.org/2/
Cloanalyst Thomas B. Kepler (tbkepler@bu.edu), Boston University http://www.bu.edu/computationalimmunology/research/software/
HKL2000 Suite 6 HKL Research www.hkl-xray.com
Phenix Paul D. Adams (pdadams@lbl.gov), Lawrence Berkeley Laboratory www.phenix-online.org; RRID: SCR_014224
Crystallographic Object-Oriented Toolkit (COOT) Software Paul Emsley (paul.emsley@mrc-lmb.cam.ac.uk), Oxford University https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/; RRID: SCR_014222
WebLogo Steven Brenner, Berkeley (Crooks et al., 2004) http://weblogo.berkeley.edu
PRISM 7 GraphPad https://www.graphpad.com/scientific-software/prism/
     
Other
TM Adjuvant: Adjuplex Sigma-Aldrich A0362