Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3521 |
| PDBID: | 7CYV |
| Chains: | H_B |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 3.13 |
| Reference: | 10.15252/emmm.202114544 |
| Antibody | |
| Antibody: | FD20 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Chain: H
Mutation: NULL
| >7CYV_H|Chain A[auth H]|The heavy chain variable region of the scFv FD20,The light chain variable region of the scFv FD20|Homo sapiens (9606) GSSSQQVQLQQSGAEVKKPGSSVKVSCKASGGTFSSYAFSWVRQAPGQGLEWMGRIIPILGIANYAQKFQGRVTITADISTSTAYMALSSLRSEDTAVYYCAKVEVNIGMDDYYYYYGMDVWGQGTTVTVSSGGGSGGGGSGGGGSSYVLTQPPSVSVSPGQTARITCSGDALPKQYAYWYQQKPGQAPVLVIYKDSERPSGIPERFSGSSSGTTVTLTISGVQAEDEADYYCQSADSSGTYVVFGGGTKLTVLSAGRAGEQKLISEEDLNSAVDHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >7CYV_B|Chain B|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) AGSPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTGTLEVLFQ |
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)
| Chain residues position delta_SASA
: residuesposition H: LEU55 ILE57 ASN102 GLY104 MET105 ASP106 ASP107 TYR108 TYR109 TYR110 TYR112 LEU1027 PRO1028 LYS1029 GLN1030 TYR1031 LYS1049 ASP1050 SER1065 SER1092 SER1093 THR1095 TYR1096 B: TRP353 ASN354 ARG355 LYS356 ARG357 TYR396 PRO426 ASP427 ASP428 ARG457 SER459 ASN460 LEU461 LYS462 PRO463 PHE464 GLU465 ARG466 ILE468 GLU516 LEU518 HIS519 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
