SARS-CoV-2 Delta RBD in complex with XBB-9 Fab and an anti-Fab nanobody

1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.

A structure-function analysis shows SARS-CoV-2 BA.2.86 balances antibody escape and ACE2 affinity.

QVQLVETGGGLVQPGGSLRLSCEASEIIVSANYMTWVRQAPGKGLEWVSLIYPGGTTYLSDSLKGRFTVSRDNSKNTMNL
EMNSLRAGDTAVYYCARLIVGGIAGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW
NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK

AIQLTQSPSSLSASVGDRVTITCQATHDINKFLNWYQQKPGKAPKLLIYDASNLETGVPSRFSGSGFGTTFTFTISSLQP
EDIATYFCHQYENIPPIFGPGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQ
ESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

HHHHHHTNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDE
VRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYRYRLFRKSNLKPFERDISTEIYQAGSKPCNGVEGF
NCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGKK

MAGSQVQLQESGGGLVQPGGSLRLSCAASGRTISRYAMSWFRQAPGKEREFVAVARRSGDGAFYADSVQGRFTVSRDDAK
NTVYLQMNSLKPEDTAVYYCAIDSDTFYSGSYDYWGQGTQVTVSSHHHHHHEPEA

Severe acute respiratory syndrome coronavirus 2

0.2 M Calcium acetate hydrate, 0.1 M sodium cacodylate pH 6.5, 40% PEG 300.

CAMS Innovation Fund for Medical Sciences (CIFMS)

Medical Research Council (MRC, United Kingdom)

SARS-CoV-2, RBD, BA.2.86, XBB.1.5, XBB.1.5.10, XBB.1.5.70, VIRAL PROTEIN

(chain "A" and (resid 2 through 122 or resid 124 through 221))

(chain "H" and (resid 2 through 122 or resid 124 through 221))

(chain "E" and (resid 333 through 442 or resid 444 through 518))

(chain "R" and (resid 333 through 442 or resid 444 through 518))

(chain "J" and (resid 1 through 2 or resid 4 through 120))

(chain "N" and (resid 1 through 2 or resid 4 through 120))

TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAP
GQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPL
QSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG