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. Author manuscript; available in PMC: 2022 Feb 1.
Published in final edited form as: Cell Rep. 2021 Apr 6;35(1):108933. doi: 10.1016/j.celrep.2021.108933

KEY RESOURCE TABLE.

REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
VRC01 This paper RRID: AB_2491019
3BNC60 This paper RRID: AB_2491038
PG9 This paper RRID: AB_2491030
PG16 This paper RRID: AB_2491031
PGT145 This paper RRID: AB_2491054
PGDM1400 This paper N/A
CH01 This paper RRID: AB_2491055
PGT121 This paper RRID: AB_2491041
PGT122 This paper RRID: AB_2491042
PGT123 This paper RRID: AB_2491043
PGT125 This paper RRID: AB_2491044
PGT126 This paper RRID: AB_2491045
PGT128 This paper RRID: AB_2491047
PGT130 This paper RRID: AB_2491048
2G12 This paper RRID: AB_2819235
PGT135 This paper RRID: AB_2491050
PGT151 This paper N/A
35O22 This paper N/A
3BC315 This paper N/A
HIV-Ig This paper N/A
Goat Anti-Human IgG (HRP) SeraCare Cat# 5220–0277
CA13 (ARP3119) EU Programme EVA Centralized Facility for AIDS Reagents, NIBSC N/A
Anti-HIV-1 gp120 Aalto Bio Reagents Cat# D7324
Cell lines
HEK293F cells Thermo Fisher Scientific Cat# R79007
HEK293T cells American Type Culture Collection Cat.# 11268
ExpiCHO-S cells Thermo Fisher Scientific Cat# A29127
Chemicals, peptides, and recombinant proteins
FectoCHO CD Expression Media VWR Cat# 76234–742
FectoPRO DNA transfection kit VWR Cat# 10118–842
FreeStyle 293F media Thermo Fisher Scientific Cat# 12338026
Opti-MEM Reduced Serum Medium Thermo Fisher Scientific Cat# 31985070
PEI MAX transfection reagent Polysciences Cat# 24765–1
Lipofectamine 2000 Life Technologies Cat# 11668–019
Dulbecco’s Modified Eagles Medium Life Technologies Cat# 41966052
Acetonitrile, 80%, 20% Water with 0.1% Formic Acid, Optima LC/MS Fisher Scientific Cat# 15431423
Water with 0.1% Formic Acid (v/v), Optima LC/MS Grade Fisher Scientific Cat# LS118–212
Acetonitrile Fisher Scientific Cat# 10489553
Trifluoroacetic acid Fisher Scientific Cat# 10155347
Procainamide hydrochloride Abcam Cat# ab120955
H2O18 Sigma-Aldrich Cat# 329878
Dithiothreitol Sigma-Aldrich Cat# 43819
lodacetamide Sigma-Aldrich Cat# I1149
Ammonium formate buffer Waters Cat# 186007081
Sodium cyanoborohydride Sigma-Aldrich Cat# 156159
DMSO Sigma-Aldrich Cat# D2438
Acetic acid Fisher Scientific Cat# 10384970
Peptide-N-glycosidase F New England Biolabs Cat# P0705S
Endoglycosidase H New England Biolabs Cat# P0702S
Mass spectrometry grade trypsin Promega Cat# V5280
Sequencing grade chymotrypsin Promega Cat# V1061
HBS-EP buffer Cytiva Cat# BR100188
Sensor Chips, CM5 Cytiva Cat# 29149604
Aqueous buffer, 10mM Glycine-HCl pH2.0 Cytiva Cat# BR100355
Streptavidin (SA) biosensors Fortebio Cat#18–5019
Dpnl New England Biolabs Cat# R0176S
Penicillin Sigma-Aldrich P3032–10MU
Streptomycin VWR 382-EU-100G
GIBCO DPBS Life Technologies Cat# 12559069
Glycyl Glycine 99+% Fisher Scientific Cat# 10540771
MgSO4 VWR Cat# 10034–99-8
TitriPlex III (EDTA) VWR Cat# 1.08418.1000
Triton X-100 Fisher Scientific Cat# BP151500
Tris Sigma-Aldrich Cat# 10708976001
HCl Biosolve Cat# 084105
Glycine VWR Cat# 4500345965
Magnesium Chloride (MgCl2) VWR Cat# 4500348228
Sodium Bicarbonate (NaHCO3) Life Technologies Cat# 25080094
Sodium Chloride (NaCl) Sigma-Aldrich Cat# S7653–1KG
Sodium Acetate (NaAc) VWR Cat# 1.06268.1000
Citric Acid Monohydrate Brunschwig Cat# 36665.22
3,3′,5,5′-Tetramethylbenzidine (TMB) Sigma-Aldrich Cat# T-2885
H2O2 Brunschwig Cat# CP26.1
Sulfuric Acid 95–97% VWR Cat# 1.00731.1010
Sodium Dodecyl Sulfate Sigma Cat# L5750–1kg
Glycerol Thermo Fisher Scientific Cat# 15514–011
Methanol Biosolve Cat# 13680502
Nonfat Dried Milk Powder VWR Cat# A0830.0500
Tween-20 Antibody chain (santacruz) Cat# SC-29113
Precision Plus Protein Standard Dual Color Bio-Rad Cat# 161–0374
Western Lightning Plus-ECL PerkinElmer Cat# NEL103001EA
NativePAGE Running Buffer Thermo Fisher Scientific Cat# BN2001
NativePAGE Cathode Buffer Additive Thermo Fisher Scientific Cat# BN2002
MOPS Sigma Cat# M1254–250G
Coomassie Brilliant Blue G-250 Fluka Cat# 27815
HMW-Native Protein Mixture Cytiva Cat# 17–0445-01
Bovine Serum Albumine Sigma Cat# A7637–10 g
Critical commercial assays
In-Fusion HD cloning plus Takara Cat# 638910
QuickChange site-directed mutagenesis kit Agilent Cat# 200518
NucleoSpin PCR clean-up kit Macherey-Nagel Cat# 740609.50
Bright-Glo Luciferase Assay system Promega Cat# E2650
Deposited data
BG505 SOSIPv5.2 in complex with PGT122 and two RM20E1 Fabs This Study EMD-22170
BG505 SOSIPv5.2 in complex with PGT122 and three RM20E1 Fabs This Study EMD-22171
C3 symmetric BG505 SOSIPv5.2 in complex with PGT122 and three RM20E1 Fabs This Study EMD-22172
BG505 SOSIPv5.2 in complex with PGT122 and one RM20E1 Fab This Study EMD-22173
BG505 SOSIPv5.2 in complex with PGT122 and no RM20E1 Fabs This Study EMD-22178
C3 symmetric BG505 SOSIPv5.2 in complex with PGT122 and no RM20E1 Fabs This Study EMD-22179
Recombinant DNA
BG505 SOSIP.v4.1 de Taeye et al., 2015 N/A
BG505 SOSIP.v5 Torrents de la Peña et al., 2017 N/A
VRC01 light and heavy chains Wu et al., 2010 N/A
3BNC60 light and heavy chains Scheid et al., 2011 N/A
PG9 light and heavy chains Walker et al., 2011 N/A
PG16 light and heavy chains Walker et al., 2011 N/A
PGT145 light and heavy chains Walker et al., 2011 N/A
PGDM1400 light and heavy chains Sok et al., 2014 N/A
CH01 light and heavy chains Bonsignori et al., 2011 N/A
PGT121 light and heavy chains Walker et al., 2011 N/A
PGT122 light and heavy chains Walker et al., 2011 N/A
PGT123 light and heavy chains Walker et al., 2011 N/A
PGT125 light and heavy chains Walker et al., 2011 N/A
PGT126 light and heavy chains Walker et al., 2011 N/A
PGT128 light and heavy chains Walker et al., 2011 N/A
PGT130 light and heavy chains Walker et al., 2011 N/A
2G12 light and heavy chains Calarese et al., 2003 N/A
PGT135 light and heavy chains Walker et al., 2011 N/A
PGT151 light and heavy chains Blattner et al., 2014 N/A
35O22 light and heavy chains Huang et al., 2014 N/A
3BC315 light and heavy chains Klein et al., 2012 N/A
Polyclonal HIV-Ig NIH AIDS Reagent Program N/A
Software and algorithms
Empower 3.0 Waters N/A
Masslynx v4.1 Waters N/A
Driftscope version 2.8 Waters N/A
Byos™ (Version 3.9) Protein Metrics Inc. N/A
GraphPad Prism v8 GraphPad N/A
XCalibur Version v4.2 Thermo Fisher N/A
Orbitrap Fusion Tune application v3.1 Thermo Fisher N/A
Other
Superdex 200 Increase 10/300 SEC column Cytiva Cat# 28–9909-44
SDS-PAGE 8% Tris-Glycine gel Invitrogen Cat# XP00085BOX
SDS-PAGE 4–20% Tris-glycine gel Invitrogen Cat# XP04205BOX
NuPAGE 4–12% Bis-Tris gel Invitrogen Cat# NP0321BOX
Econo-Column® Chromatography Columns Bio-Rad Cat# 7371512
Glycan BEH Amide column (2.1 mmx 100 mm, 1.7 μM) Waters Cat# 186004741
EasySpray PepMap RSLC C18 column (75 μm x 75 cm) Thermo Fisher Scientific Cat# ES805
PVDF protein-binding membrane Millipore Cat# MAIPS4510
C18 ZipTip Merck Milipore Cat# ZTC18S008
Spe-ed Amide 2 cartridges Applied Separations Cat# 4821
Vivaspin 500, 3 kDa MWCO, Polyethersulfone Sigma-Aldrich Cat# GE28–9322–18
Vivaspin 20, 100.000 MWCO PES Sartorius Cat# VS2042
PepMap100 C18 3UM 75UMx2CM Nanoviper Thermo Scientific 164946
Steritop-GP Filter Unit 0.22μm Millipore Cat# SCGPT05RE
CNBr-activated Sepharose4B Cytiva Cat# 17–0430–01
ELISA-plate, half-area, 96W Greiner Bio One Cat# 675061
Hissorb 96-well ELISA plates QIAGEN Cat# 35061