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. 2019 Nov 13;26(5):623–637.e8. doi: 10.1016/j.chom.2019.09.016
REAGENT or RESOURCE Source Identifier
Antibodies

PE-Cy7 Mouse Anti-Human CD19 BD Biosciences Cat#341113_clone SJ25-C1
Alexa Fluor 488 goat anti-Human IgM Invitrogen Cat#A21215; RRID:AB_2535800
Goat anti-Human IgA FITC Invitrogen Cat#A18788; RRID:AB_2535565
Anti-Human CD3 PC5 Beckman Coulter Cat#A07749
Anti-Human CD38 APC BD Pharmingen Cat#555462_clone HIT2 (RUO); RRID:AB_398599
Anti-Human CD14 PC5 Beckman Coulter Cat#A07765
Anti Human CD27 BV650 BioLegend Cat#302827_clone O323; RRID:AB_11124941
AffiniPure F(ab’)2 Fragment Goat Anti-Human IgA+IgG+IgM (H+L) Jackson Immunoresearch Cat#109-006-064; RRID:AB_2337548
AP-conjugated anti-human IgG secondary antibody Southern Biotech Cat#2040-04; RRID: AB_2795643
10E8 recombinant mAb IRB and Pasteur; Huang et al., 2012 PMID:23151583; RRID:AB_2491067
HK20 recombinant mAb IRB;
Sabin et al., 2010
PMID:21124990; RRID:AB_2491018
4E10 recombinant mAb IRB and Pasteur; Stiegler et al., 2001 PMID:11788027; RRID:AB_2491029
LN01 Recombinant mAb and All Variants this paper N/A
Mouse Anti-HIV-1 Gag FITC (Clone KC57) Beckman Coulter Cat#6604665
mGO53 Dr. Hugo Mouquet, Institut Pasteur, Paris; Wardemann et al., 2003 PMID:12920303
3BNC117 Produced by Dr. Hugo Mouquet; Scheid et al., 2011 PMID: 21764753; RRID:AB_2491033
10–1074 Produced by Dr. Hugo Mouquet; Mouquet et al., 2012 PMID: 23115339; RRID:AB_2491062
PGT128 Produced by Dr. Hugo Mouquet; Walker et al., 2011 PMID:21849977; RRID:AB_2491047
PGT151 Produced by Dr. Hugo Mouquet; Falkowska et al., 2014 PMID: 24768347

Bacterial and Virus Strains

HIV-1 PV strain CE1176 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain BJOX2000 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain X1632 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain 25710 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain TRO.11 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain CH119 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain 246F3 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain CE0217 Fraunhofer Institute for Biomedical Engineering IBMT N/A
HIV-1 PV strain CNE55 Fraunhofer Institute for Biomedical Engineering IBMT N/A
SVA-MLV_control PV Fraunhofer Institute for Biomedical Engineering IBMT N/A
Epstein Barr Virus IRB N/A
pCH058.c/2960 NIH AIDS Reagent Program Cat#11856
pCH077.t/2627 NIH AIDS Reagent Program Cat#11742
pNL(AD8) NIH AIDS Reagent Program Cat#11346
pYU2 NIH AIDS Reagent Program Cat#1350
Standard panel of reference Env pseudoviruses Huang et al., 2016 Multiclade Reference Panel
PMID:27315479
OverExpress C41(DE3) chemically competent E. coli cells Sigma-Aldrich Cat#CMC0017
Ni-NTA Agarose Qiagen Cat#30210

Biological Samples

HIV-1 Infected ART Naïve Patient LNMCs Hospital “Sacco” in Milan, Italy N/A
Human serum Etablissement Français du Sang N/A

Chemicals, Peptides, and Recombinant Proteins

28amino acids long peptide gp41 MPER Pepscan N/A
Human recombinant IL-6 BD Pharmingen Cat#550071
Human recombinant IL-21 ImmunoTools Cat#11340215
Human recombinant IL-2 IRB N/A
MPER-TM1 Peptide Smart Bioscience www.smart-bioscience.com
Fos-Choline-12 anatrace Cat#F308
n-Octyl-β-D-glucosid n-Octyl-β-D-Glucopyranoside anatrace Cat#O311
PEG3350 Sigma-Aldrich Cat#88276
PEG8000 Sigma-Aldrich Cat#89510
HEPES Sigma-Aldrich Cat#H4034
Ethylene glycol Carl Roth Cat#6881.1
06:0 PS Avanti Polar Lipids Cat#840030

Critical Commercial Assays

ImmunoWELL cardiolipin (IgG) test GenBio Cat#3090
Pierce Rapid Gold BCA Protein Assay kit Thermo Fisher Scientific Cat#A53225PR
NK cell isolation kit Miltenyi Biotec Cat#130-092-657
LIVE/DEAD Fixable Aqua Dead Cell Stain Kit Invitrogen Cat#L34965
ANA HEp-2 Test System Zeus Scientific Cat# FA2400
EZ-LinkNHS-PEG4-Biotinylation Kit Thermo Scientific Cat#21455

Deposited Data

MPER-TM1-LN01 complex this paper 6SNC
MPER-TM1-LN01-PS complex this paper 6SND
MPER-TM2-LN01 complex this paper 6SNE

Experimental Models: Cell Lines

TZM-bl cell line NIH AIDS Reagent Program Cat#8129
TZM-bl FcγRI cell line NIH AIDS Reagent Program Cat#11798
Expi293F cells Thermo Fisher Scientific Cat#A14527
Mesenchimal stromal cells (MSC) IRB N/A
CEM-NKR-CCR5 NIH AIDS Reagent Program Cat# 4376
Raji ATCC CCL-86
293T/17 ATCC Cat# CRL-11268

Experimental Models: Organisms/Strains

Mouse: homozygous human FcRn (huFcRn) transgenic mice_Tg276 strain Jackson Laboratory JAX: 004919

Oligonucleotides

CpG 2006 Microsynth N/A

Recombinant DNA

Plasmid: IgG1 expression vector Tiller et al., 2008 PMID:17996249
Plasmid: Igk expression vector Tiller et al., 2008 PMID:17996249
pMX-YU2-ENVΔCT- IRES-GFP Provided by Dr. Hugo Mouquet, Pasteur N/A
Plasmid: MPER-TM2 expression vector This study N/A

Software and Algorithms

Prism 8 GraphPad https://www.graphpad.com/scientific-software/prism/
CLC Main Workbench 8 QIAGEN https://www.qiagenbioinformatics.com/products/clc-main-workbench/
IMGT-the International Immunogenetics Information System Lefranc et al., 1999 http://www.imgt.org
XDS Kabsch, 2010 PMID:20124693
Phaser McCoy et al., 2007 PMID:19461840
COOT Emsley et al., 2010 PMID:20383002
REFMAC Murshudov et al., 1997 PMID:15299926
Phenix Adams et al., 2010 PMID:20124702
SBGrid Morin et al., 2013 N/A
Pymol Warren DeLano www.pymol.org
VMD (Version 1.9.4) Humphrey et al., 1996 https://www.ks.uiuc.edu/Research/vmd/
NAMD (Version 2.13) Phillips et al., 2005 https://www.ks.uiuc.edu/Research/namd/
CHARMM-GUI Jo et al., 2008 http://www.charmm-gui.org
WebLogo Schneider and Stephens, 1990 https://weblogo.berkeley.edu/logo.cgi
wwPDB OneDep System https://deposit-pdbe.wwpdb.org
wwPDB Validation Service https://validate.wwpdb.org/
BLI Data Analysis software (v11.1.0.25) Pall FortéBio https://www.moleculardevices.com
SBGrid Consortium (Morin et al., 2013) https://sbgrid.org/
Python 3.7 https://python.org
Biacore T200 Control Software https://www.gelifesciences.com/biacore