REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Fab	(Dejnirattisai et al., 2021a)	N/A
IgG	(Dejnirattisai et al., 2021a, Liu et al., 2021b)	N/A
Human anti-NP (mAb 206)	(Dejnirattisai et al., 2021a)	N/A
EY6A mAb	Zhou et al., 2020	N/A
Regeneron mAbs	AstraZeneca	Cat#REGN10933, and REGN10987
AstraZeneca mAbs	AstraZeneca	Cat#AZD1061, AZD8895
Vir mAbs	Adagio	Cat#S309
Lilly mAbs	Adagio	Cat#Ly-CoV555, and Cat#Ly-CoV16
Adagio mAbs	Adagio	Cat#ADG10, Cat#ADG20, and Cat#ADG30
Anti-Human IgG (Fc specific)-Peroxidase	Sigma	Cat#A0170; RRID:AB_257868
Polyclonal Rabbit Anti-Goat Immunoglobulins/FITC	DAKO	Cat#F0250
Anti-c-Myc 9E10 antibody	Biolegend	Catt#626872; RRID; AB_626872
Anti-mouse IgG(Fc specific)-FITC antibody	Merck/Sigma Aldrich	Catt#F4143; RRID:AB_259587
Bacterial and virus strains and yeast
SARS-CoV-2 (Australia/VIC01/2020)	Caly et al., 2020	N/A
SARS-CoV-2/Alpha	Public Health England	N/A
SARS-CoV-2/Beta	Public Health England	N/A
SARS-CoV-2/Gamma	Dejnirattisai et al., 2021	N/A
SARS-CoV-2/Delta	W. Barclay	Imperial College London
SARS-CoV-2/Omicron	This paper	N/A
DH5α bacteria	In Vitrogen	Cat#18263012
Saccharomyces cerevisiae EBY100	ATCC	Cat#MYA-4941
E. coli cloni 10G cells	Lucigen, USA	Cat#60117-1
Biological samples
Serum from Pfizer-vaccinated individuals	University of Oxford	N/A
Serum from AstraZeneca-Oxford-vaccinated individuals	University of Oxford	N/A
Plasma from SARS-CoV-2 patients	John Radcliffe Hospital in Oxford UK, South Africa, and FIOCRUZ (WHO) Brazil	N/A
Chemicals, peptides, and recombinant proteins
His-tagged SARS-CoV-2 RBD	(Dejnirattisai et al., 2021a)	N/A
His-tagged SARS-CoV-2/Omicron RBD	This paper	N/A
His-tagged SARS-CoV-2 RBD-62	Zahradnik et al., 2021b	N/A
His-tagged SARS-CoV-2 RBD N501Y	Supasa et al., 2021	N/A
His-tagged SARS-CoV-2 RBD K417N, E484K, N501Y	Zhou et al., 2021	N/A
His-tagged SARS-CoV-2 RBD K417T, E484K, N501Y	Dejnirattisai et al., 2021b	N/A
His-tagged SARS-CoV-2 RBD L452R, T478K	Liu et al., 2021a	N/A
His-tagged human ACE2	Liu et al., 2021a	N/A
Human ACE2-hIgG1Fc	Liu et al., 2021a	N/A
His-tagged 3C protease	Libby et al., 1988	N/A
Phosphate buffered saline tablets	Sigma-Aldrich	Cat#P4417
Dulbecco’s Modified Eagle Medium, high glucose	Sigma-Aldrich	Cat#D5796
Dulbecco’s Modified Eagle Medium, low glucose	Sigma-Aldrich	Cat#D6046
FreeStyle 293 Expression Medium	Gibco	Cat#12338018
L-Glutamine–Penicillin–Streptomycin solution	Sigma-Aldrich	Cat#G1146
GlutaMAX Supplement	Gibco	Cat#35050061
UltraDOMA PF Protein-free Medium	Lonza	Cat#12-727F
Opti-MEM	Gibco	Cat#11058021
Fetal Bovine Serum	Gibco	Cat#12676029
Polyethylenimine, branched	Sigma-Aldrich	Cat#408727
Carboxymethyl cellulose	Sigma	Cat#C4888
Strep-TactinXT	IBA Lifesciences	Cat#2-1206-025
HEPES	Melford	Cat#34587-39108
Sodium Chloride	Honeywell	Cat#SZBF3340H
LB broth	Fisher Scientific UK	Cat#51577-51656
Mem Neaa (100X)	Gibco	Cat#2203945
Trypsin-EDTA	Gibco	Cat#2259288
TrypLE Express Enzyme	Gibco	Cat#12604013
L-Glutamine 200 mM (100X)	Gibco	Cat#2036885
SYPROorange (5000X in DMSO)	Thermo	Cat#S6651
Isopropyl β-d-1-thiogalactopyranoside	Meridian Bioscience	Cat#BIO-37036
Kanamycin	Melford	Cat#K22000
Lysozyme	Sigma-Aldrich	Cat#L6876
Tris-base	Melford	Cat#T60040
Imidazole	Sigma-Aldrich	Cat#56750
Triton-X-100	Sigma-Aldrich	Cat#8787
Turbonuclease	Sigma-Aldrich	Cat#T4330
RNAse A	Qiagen	Cat#158922
NaCl	Sigma-Aldrich	Cat#S9888
MgSO4	Sigma-Aldrich	Cat#746452
Na2HPO4	Melford	Cat#S23100
NaH2PO4	Melford	Cat#S23185
SD-CAA media	Zahradnik et al., 2021a	N/A
CF640-ACE2	Zahradnik et al., 2021b	N/A
HBS-EP+ Buffer 10×	Cytiva	Cat# BR100669
Regeneration Solution (glycine-HCl pH 1.7)	Cytiva	Cat# BR100838
Deposited data
Crystal structures of SARS-CoV-2 Omicron-RBD/Beta-55 and EY6A Fab complex	This paper	PDB:7QNW
Crystal structures of SARS-CoV-2 RBD/Beta-55 and EY6A Fab complex	This paper	PDB:7QNX
Crystal structures of SARS-CoV-2 RBD/COVOX-58 and COVOX-158 Fab complex	This paper	PDB:7QNY
Experimental models: Cell lines
HEK293S GnTI- cells	ATCC	Cat#CRL-3022
HEK293 cells	ATCC	Cat#CRL-3216
Expi293F™ Cells	Gibco,	Cat#A14527
HEK293T/17 cells	ATCC	Cat#CRL-11268™
HEK293T cells	ATCC	Cat#CRL-11268
Hamster: ExpiCHO cells	Thermo Fisher	Cat#A29133
Vero CCL-81 cells	ATCC	Cat#CCL-81
VeroE6/TMPRSS2 cells	NIBSC	Ref. no. 100978
Recombinant DNA
Vector: pHLsec	Aricescu et al., 2006	N/A
Vector: pNEO	Aricescu et al., 2006	N/A
Vector: pHLsec-SARS-CoV-2 spike of Omicron	This paper	N/A
Vector: pNEO-SARS-CoV-2 RBD of Omicron	This paper	N/A
Vector: pCMV-VSV-G	Stewart et al., 2003	Addgene plasmid # 8454
pHR-SIN-ACE2	Alain Townsend	N/A
Vector: pOPING-ET	Nettleship et al., 2008	N/A
Vector: human IgG1 heavy chain	German Cancer Research Center, Heidelberg, Germany (H. Wardemann	N/A
Vector: human lambda light chain	German Cancer Research Center, Heidelberg, Germany (H. Wardemann	N/A
Vector: human kappa light chain	German Cancer Research Center, Heidelberg, Germany (H. Wardemann	N/A
Vector: Human Fab	Univeristy of Oxford	N/A
Vector: pJYDC1	Adgene	ID: 162458
Software and algorithms
COOT	(Emsley et al., 2010)	https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
Xia2-dials	Winter et al., 2018	https://xia2.github.io/parameters.html
PHENIX	Liebschner et al., 2019	https://www.phenix-online.org/
PyMOL	(Schrödinger and DeLano, 2020)	https://pymol.org/
Data Acquisition Software 11.1.0.11	Fortebio	https://www.fortebio.com/products/octet-systems-software
Data Analysis Software HT 11.1.0.25	Fortebio	https://www.fortebio.com/products/octet-systems-software
Prism 8.0	GraphPad	https://www.graphpad.com/scientific-software/prism/
Yeast display titration curve fitting were done by the standard non-cooperative Hill equation, fitted by nonlinear least-squares regression with two additional parameters using Python 3.7	Zahradnik et al., 2021b	N/A
IBM SPSS Software 27	IBM	https://www.ibm.com
mabscape	This paper	https://github.com/helenginn/mabscape https://snapcraft.io/mabscape
Other
X-ray data were collected at beamline I03, Diamond Light Source, under proposal ib27009 for COVID-19 rapid access	This paper	https://www.diamond.ac.uk/covid-19/for-scientists/rapid-access.html
TALON Superflow Metal Affinity Resin	Clontech	Cat#635668
HiLoad 16/600 Superdex 200 pg	Cytiva	Cat#28-9893-35
Superdex 200 increase 10/300 GL column	Cytiva	Cat#28990944
HisTrap nickel HP 5-ml column	Cytiva	Cat#17524802
HiTrap Heparin HT 5-ml column	Cytiva	Cat#17040703
Amine Reactive Second-Generation (AR2G) Biosensors	Fortebio	Cat#18-5092
Octet RED96e	Fortebio	https://www.fortebio.com/products/label-free-bli-detection/8-channel-octet-systems
Buffer exchange system “QuixStand”	GE Healthcare	Cat#56-4107-78
Cartesian dispensing system	Genomic solutions	Cat#MIC4000
Hydra-96	Robbins Scientific	Cat#Hydra-96
96-well crystallization plate	Greiner bio-one	Cat#E20113NN
Crystallization Imaging System	Formulatrix	Cat#RI-1000
Sonics vibra-cell vcx500 sonicator	VWR	Cat#432-0137