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. 2018 Nov 7;7:e37688. doi: 10.7554/eLife.37688

Key resources table.

Reagent type
(species) or Resource		 Designation Source or reference Identifiers Additional information
Software,
algorithm		 Leginon doi: 10.1016/
j.jsb.2005.03.010		 http://emg.nysbc.org/redmine/projects/leginon/wiki/Leginon_Homepage
Software,
algorithm		 RELION-2 doi: 10.1016/
j.jsb.2012.09.006		 RRID:SCR_016274 http://www2.mrc-lmb.cam.ac.uk/relion/index.php/Main_Page
Software,
algorithm		 MotionCor2 doi:10.1038/
nmeth.4193		 http://emg.nysbc.org/redmine/projects/appion/wiki/Appion_Home
Software,
algorithm		 GCTF doi: 10.1016/
j.jsb.2015.11.003		 RRID:SCR_016500 https://www.mrc-lmb.cam.ac.uk/kzhang/
Software,
algorithm		 CTFFIND4 doi:10.1016/
j.jsb.2015.08.008		 http://grigoriefflab.janelia.org/ctffind4
Software,
algorithm		 Frealign doi: 10.1016/
bs.mie.2016.04.013		 http://grigoriefflab.janelia.org/frealign
Software,
algorithm		 Appion Package doi: 10.1016/
j.jsb.2009.01.002		 http://emg.nysbc.org/redmine/projects/appion/wiki/Appion_Home
Software,
algorithm		 DoG Picker doi:10.1016/
j.jsb.2009.01.004		 http://emg.nysbc.org/redmine/projects/appion/wiki/Appion_Home
Software,
algorithm		 Coot doi: 10.1107/
S0907444910007493		 RRID:SCR_014222 http://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/devel/build-info.html
Software,
algorithm		 Rosetta doi: 10.1146/annurev.
biochem.77.062906
.171838		 RRID:SCR_015701 https://www.rosettacommons.org/software
Software,
algorithm		 UCSF Chimera doi: 10.1002/jcc.20084 RRID:SCR_004097 http://plato.cgl.ucsf.edu/chimera/
Software,
algorithm		 PMI-Byonic doi: 10.1002/
0471250953.bi1320s40		 https://www.proteinmetrics.com/products/byonic/
Software,
algorithm		 Skyline doi: 10.1093/
bioinformatics/btq054		 RRID:SCR_014080 https://skyline.ms/project/home/software/Skyline/begin.view
Software,
algorithm		 Octet Data
Acquisition		 Pall ForteBio CFR 10.0.3.12d https://www.fortebio.com/octet-software.html
Software,
algorithm		 Octet Data Analysis Pall ForteBio CFR 10.0.3.1 https://www.fortebio.com/octet-software.html
Software,
algorithm		 Phaser doi:10.1107/
S0021889807021206		 https://www.phenix-online.org/documentation/reference/phaser.html
Software,
algorithm		 Phenix.refine doi:10.1107/
S0907444912001308		 https://www.phenix-online.org/documentation/reference/refinement.html
Software,
algorithm		 GraphPad Prism GraphPad RRID:SCR_002798 https://www.graphpad.com/scientific-software/prism/
Software,
algorithm		 Pymol Delano, 2002 https://pymol.org/2/
Cell Line
(Homo sapiens)		 HEK293S GnTI-/- ATCC ATCC: CRL-3022;
RRID:CVCL_A785 		https://www.atcc.org/Products/All/CRL-3022.aspx
Cell Line
(Homo sapiens)		 HEK293F ThermoFisher
Scientifc		 Cat# R79007 https://www.thermofisher.com/order/catalog/product/R79007
Gene
(Homo sapiens)		 gl VRC01 Igk(3-11) doi: 10.1126/
science.1192819
Gene
(Homo sapiens)		 gl VRC01 Igg Fab doi: 10.1038/
ncomms10618
Gene
(Homo sapiens)		 gl VRC01 Igg
Fab A60C/C98S		 This paper
Gene
(Homo sapiens)		 gl VRC01 Igg 10.1126/science.1192819
Gene
(Homo sapiens)		 gl 12A21 Igk(1-33) 10.1084/jem.20122824
Gene
(Homo sapiens)		 gl 12A21 Igg Fab 10.1038/ncomms10618
Gene
(Homo sapiens)		 gl 12A21 Igg 10.1084/jem.20122824
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 WT_426 c_DS-SOSIP 10.1016/j.cell
.2016.07.029
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_G459C
_DS-SOSIP_D3		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_WT_
gp120c_core		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_G459C
_gp120c_core		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_S278A
_gp120c_core		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_S278A_T462A
_gp120c_core		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_S278A_T465A
_gp120c_core		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_S278A_T462A_
T465A_gp120c_core		 This paper
Strain, strain
background (Human
Immunodeficiency
Virus-1, Strain: 426 c)		 426 c_S278T_gp120c This paper
Recombinant
DNA reagent		 pTT3 PMID: 11788735 https://biochimie.umontreal.ca/en/department/professors/yves-durocher/
Recombinant
DNA reagent		 pVRC8400 NIH
Chemical
compound, drug		 Kifunensine Sigma-Aldrich CAS Number
109944-15-2		 https://www.sigmaaldrich.com/catalog/product/sigma/k1140?lang=en&region=US&gclid=Cj0KCQjwr53OBRCDARIsAL0vKrNtYwTyRzHU65HyVBwdntcP3kGpZ0ElVwYeSK3OcorLn0wf8U1iMQgaAssSEALw_wcB
Peptide,
recombinant protein		 Endoglycosidase-H New England Biolabs Catalog #P0702S https://www.neb.com/products/p0702-endo-h#Product%20Information