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. Author manuscript; available in PMC: 2023 Sep 27.
Published in final edited form as: Cell Rep. 2023 Jul 11;42(7):112711. doi: 10.1016/j.celrep.2023.112711

KEY RESOURCES TABLE

REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
PG9RSH-(DU001 – DU010, N(100fY), DU012 – DU034) NIH/VRC, this paper N/A
PGT145-(DU301 – DU310) NIH/VRC, this paper N/A
Monoclonal anti-HIV-1 Env PGT145 NIH AIDS Reagent Program22 CAT# 12703, RRID: AB_2491054
Monoclonal anti-HIV-1 Env PG9–16-RSH NIH/VRC28 N/A
Monoclonal anti-HIV-1 Env PGDM1400 Dennis R. Burton, Scripps23 N/A
Bacterial and virus strains
VRC 208 virus panel NIH/VRC63 N/A
VRC 10 virus panel (PGT145) NIH/VRC N/A
VRC 10 virus panel (PG9RSH) NIH/VRC N/A
Chemicals, peptides, and recombinant proteins
BG505 DS-SOSIP.664 NIH/VRC N/A
Critical commercial assays
Turbo293 Ab Transfection Kit Speed Biosystems Cat# PXX1005
Human Antibody Capture Kit GE Healthcare Life Sciences Cat# BR-1008–39
Deposited data
Cryo-EM map: PG9RSH N(100f)Y in complex with BG505 Env Trimer EMDB 29248
Cryo-EM structure: PG9RSH N(100f)Y in complex with BG505 Env Trimer PDB 8FK5
Cryo-EM map: PG9RSH DU025 in complex with BG505 Env Trimer EMDB 29264
Cryo-EM structure: PG9RSH DU025 in complex with BG505 Env Trimer PDB 8FL1
Cryo-EM map: PGT145 DU303 in complex with BG505 Env Trimer EMDB 29288
Cryo-EM structure: PGT145 DU303 in complex with BG505 Env Trimer PDB 8FLW
Code required for replication of designs and analysis Harvard Dataverse https://doi.org/10.7910/DVN/NXD2JR
Experimental models: Cell lines
TZM-bl cells NIH AIDS Reagent Program Cat# 8129
Expi293F cells ThermoFisher Scientific Inc Cat# A14527
Recombinant DNA
pVRC8400 https://www.addgene.org/ Cat# 63160
pVRC8400-PG9RSH-(DU001 – DU034) Heavy NIH/VRC, this paper N/A
pVRC8400-PG9RSH-(DU001 – DU034) Light NIH/VRC, this paper N/A
pVRC8400-PGT145-(DU301 – DU310) Heavy NIH/VRC, this paper N/A
pVRC8400-PGT145-(DU301 – DU310) Light NIH/VRC, this paper N/A
Software and algorithms
OSPREY Hallen et al.44 https://github.com/donaldlab/OSPREY3
The PyMol Molecular Graphics System Schrodinger, LLC https://pymol.org/2/
KING Chen et al.64 https://github.com/rlabduke/javadev
USCF Chimera Pettersen et al.65 https://www.cgl.ucsf.edu/chimera/
Leginon Suloway et al.66 https://sbgrid.org/software/titles/leginon
cryoSPARC Punjani et al.67 https://cryosparc.com/
EMRinger Barad et al.68 https://github.com/fraser-lab/EMRinger
Phenix Adams et al.69 https://sbgrid.org/software/
Coot Emsley and Cowtan.70 https://sbgrid.org/software/
MolProbity Williams et al.71 http://molprobity.biochem.duke.edu/