Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5594 |
| PDBID: | 7XDA |
| Chains: | BC_A |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | EM |
| Resolution (Å): | 2.98 |
| Reference: | 10.1038/s41421-022-00509-9 |
| Antibody | |
| Antibody: | BA7125 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Delta spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >7XDA_B|Chain A[auth B]|BA7125 fab|Homo sapiens (9606) EVQLQQWGAGLLKPSETLSLTCAVYGESFSGYYWSWIRQSPGKGLEWIGQINHSGNTNYNPSLKSRVTMSVDTSKNQFSLKLSSVTAADTAVYYCARELGHDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKT |
Light Chain: C
Mutation: NULL
| >7XDA_C|Chain B[auth C]|BA7125 fab|Homo sapiens (9606) EIVMTQSPGTLSLSPGERATLSCRASQSISSSYLAWFQQKPGQAPRLLIYGASSRAPGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGDSPLTFGGGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: L119R/T145K
| >7XDA_A|Chain C[auth A]|Spike glycoprotein|Severe acute respiratory syndrome coronavirus 2 (2697049) NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYRYRLFRKSNLKPFERDISTEIYQAGSKPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPK |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| B: GLU27 GLY31 TYR32 TYR33 GLN50 ASN52 SER54 ASN56 THR57 ASN58 TYR59 PRO61 LYS64 ARG97 GLU98 LEU99 HIS101 ASP102 TYR103 C: GLU1 GLN27 SER28 SER30 SER31 TYR33 LEU47 TYR50 ALA56 PRO57 TYR92 GLY93 ASP94 SER95 A: ARG385 ARG390 THR397 GLY398 LYS399 ASP402 TYR403 TYR431 TYR435 LEU437 PHE438 ARG439 LYS440 SER441 ASN442 TYR455 GLN456 ALA457 GLY458 SER459 GLU466 GLY467 PHE468 ASN469 TYR471 PHE472 GLN475 SER476 GLY478 GLN480 ASN483 TYR487 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
