Molecular determinants of cross-reactivity and potency by VH3-33 antibodies against the Plasmodium falciparum circumsporozoite protein

. 2023 Oct 28;42(11):113330. doi: 10.1016/j.celrep.2023.113330

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies

Goat anti-human IgG, Fcγ (HRP conjugated)	Jackson ImmunoResearch	Cat#109-035-098; RRID: AB_2337586

Chemicals, peptides, and recombinant proteins

Ferr-junction-NANP₅	This paper	N/A
Ferr-junction-NANP₁₈	This paper	N/A
LS-junction-NANP₅	This paper	N/A
LS-junction-NANP₁₈	This paper	N/A
Sigma Adjuvant System (SAS)	Sigma Aldrich	Cat#S6322
KQPA	PSL GmbH, Heidelberg	N/A
NPDP	PSL GmbH, Heidelberg	N/A
DND	PSL GmbH, Heidelberg	N/A
NDN	PSL GmbH, Heidelberg	N/A
NANP₃	PSL GmbH, Heidelberg	N/A
NPNA₃	CPC Scientific	Product#924946
NANP₆	CPC Scientific	Product#908957
KQPA	CPC Scientific	Product#926483
NPDP	CPC Scientific	Product#929317
NVDP	CPC Scientific	Product#929315
KQPA	GenScript	N/A
NPDP	GenScript	N/A
NANP₃	GenScript	N/A
NDN	GenScript	N/A
DND	GenScript	N/A
NANP₅	GenScript	N/A
mAbs listed in Table S1 isolated from the Kymouse™ platform expressed as IgG1	This paper	N/A
Ky15.1 Fab	This paper	N/A
Ky15.2 Fab	This paper	N/A
Ky15.3 Fab	This paper	N/A
Ky15.5 Fab	This paper	N/A
Ky15.7 Fab	This paper	N/A
Ky15.8 Fab	This paper	N/A
Ky15.10 Fab	This paper	N/A
Ky15.10- Y^100EK Fab	This paper	N/A
Ky15.11 Fab	This paper	N/A
Ky15.11-S^100IK Fab	This paper	N/A
Ky224 Fab	This paper	N/A
Ky230 Fab	This paper	N/A
Ky311 Fab	This paper	N/A
Ky315 Fab	This paper	N/A
NF54 PfCSP	This paper	N/A
GIBCO Freestyle 293 Expression Medium	Thermo Fisher Scientific	Cat#12338026
G418 (Geneticin)	Cedarlane	Cat#ANT-GN-1
FectoPRO DNA Transfection Reagent	VWR	Cat#10118-444
PEI MAX DNA Transfection Reagent	Polysciences	Cat#24765-100

Critical commercial assays

Series S Sensor Chip CM5	GE Healthcare	Cat#BR100530
Human Antibody Capture Kit	GE Healthcare	Cat#BR100839
CMD200M Sensor Chip	Carterra	Cat#4280
Ni-NTA Biosensors	FortéBio	Cat#18-5102

Deposited data

Crystal structure of Ky15.2 Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8F9E
Crystal structure of Ky15.2 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8F9T
Crystal structure of Ky15.2 Fab in complex with circumsporozoite protein DND peptide	This paper	PDB: 8F95
Crystal structure of Ky15.2 Fab in complex with circumsporozoite protein NDN peptide	This paper	PDB: 8F9S
Crystal structure of Ky15.2 Fab in complex with circumsporozoite protein NANP₃ peptide	This paper	PDB: 8F9F
Crystal structure of Ky15.3 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8FDD
Crystal structure of Ky15.5 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8FA9
Crystal structure of Ky15.7 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8F9U
Crystal structure of Ky15.8 Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8F9V
Crystal structure of Ky15.8 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8F9W
Crystal structure of Ky15.10 Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8FB6
Crystal structure of Ky15.10 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8FB7
Crystal structure of Ky15.10 Fab in complex with circumsporozoite protein DND peptide	This paper	PDB: 8FA6
Crystal structure of Ky15.10-Y^100EK Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8FB8
Crystal structure of Ky315 Fab in complex with circumsporozoite protein DND peptide	This paper	PDB: 8FBA
Crystal structure of Ky15.1 Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8FAN
Crystal structure of Ky15.11 Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8FA7
Crystal structure of Ky15.11 Fab in complex with circumsporozoite protein NDN peptide	This paper	PDB: 8FA8
Crystal structure of Ky15.11-S^100IK Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8FB5
Crystal structure of Ky311 Fab in complex with circumsporozoite protein KQPA peptide	This paper	PDB: 8FDC
Crystal structure of Ky230 Fab in complex with circumsporozoite protein NANP₅ peptide	This paper	PDB: 8FAS
Crystal structure of Ky224 Fab in complex with circumsporozoite protein NPDP peptide	This paper	PDB: 8FAT

Experimental models: Cell lines

Expi293F™ Cells	Gibco	Cat #A14635
CHO-3E7 Cells	NRC Canada	File 11992
Freestyle™ 293-F cells	Thermo Fisher Scientific	Cat#12338026
Human Hepatocyte HC-04 cells	BEI Resources	MRA-975

Experimental models: Organisms/strains

Mice from the Kymouse™ platform	KymAb³⁴	N/A
P. falciparum NF54 salivary gland sporozoites	Delemarre-van de Waal and de Waal⁵⁶	N/A
C57BL/6 Mice	Charles River Laboratories	Cat#027
P. berghei sporozoites expressing PfCSP, GFP and luciferase	Flores-Garcia et al.⁵⁷	N/A

Recombinant DNA

pTT5 plasmids containing heavy and light chain variable genes of mAbs listed in Table S1 isolated from the Kymouse™ platform expressed as IgG1	NRC Canada	File 11266
pcDNA3.4-PfCSP-His	This paper	N/A
pcDNA3.4-Ky15.1-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.1-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.2-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.2-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.3-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.3-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.5-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.5-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.7-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.7-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.8-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.8-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.10-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.10-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.10-Y^100EK -Fab-HC	This paper	N/A
pcDNA3.4-Ky15.11-Fab-HC	This paper	N/A
pcDNA3.4-Ky15.11-Fab-KC	This paper	N/A
pcDNA3.4-Ky15.11-S^100IK-Fab-HC	This paper	N/A
pcDNA3.4-Ky315-Fab-HC	This paper	N/A
pcDNA3.4-Ky315-Fab-KC	This paper	N/A
pcDNA3.4-Ky311-Fab-HC	This paper	N/A
pcDNA3.4-Ky311-Fab-KC	This paper	N/A
pcDNA3.4-Ky230-Fab-HC	This paper	N/A
pcDNA3.4-Ky230-Fab-KC	This paper	N/A
pcDNA3.4-Ky224-Fab-HC	This paper	N/A
pcDNA3.4-Ky224-Fab-KC	This paper	N/A
pHL-sec-Ferr-junction-NANP₅	This paper	N/A
pHL-sec-Ferr-junction-NANP₁₈	This paper	N/A
pHL-sec-LS-junction-NANP₅	This paper	N/A
pHL-sec-LS-junction-NANP₁₈	This paper	N/A

Software and algorithms

GraphPad Prism	GraphPad Software, LLC	https://www.graphpad.com/scientific-software/prism/
Biacore T200 Software	Cytiva	N/A
Kinetics Software	Carterra	https://carterra-bio.com/resources/kinetics-software/
TitrationAnalysis Tool	Li et al.⁵⁸	https://github.com/DukeCHSI/TitrationAnalysis
Octet Data Analysis Software	FortéBio	http://www.fortebio.com/
XDS	Kabsch⁵⁹	http://xds.mpimf-heidelberg.mpg.de/
Phaser	McCoy et al.⁶⁰	https://www.phenix-online.org/
Phenix	Adams et al.⁶¹	https://www.phenix-online.org/
Coot	Emsley et al.⁶²	https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
PyMOL	Schrödinger, LLC	The PyMOL Molecular Graphics System, v2.3.4.
SBGrid	Morin et al.⁶³	https://sbgrid.org/software/titles/sbgrid-installer
hbplus	McDonald and Thornton⁶⁴	https://www.ebi.ac.uk/thornton-srv/software/HBPLUS/
PDBePISA	Krissinel and Henrick⁶⁵	https://www.ebi.ac.uk/pdbe/pisa/
DSSP	Touw et al.⁶⁶; Kabsch and Sander⁶⁷	https://swift.cmbi.umcn.nl/gv/dssp/
Clustal Omega	Sievers et al.⁶⁸	https://www.ebi.ac.uk/Tools/msa/clustalo/
R (version 4.2.3)	The R Foundation	https://www.r-project.org/foundation/

Other

The International Immunogenetics Information System (IMGT)	Lefranc⁴⁰	https://imgt.org/