Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5440 |
| PDBID: | 7WRO |
| Chains: | HL_R |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus |
| Method: | EM |
| Resolution (Å): | 3.40 |
| Reference: | 10.1038/s41586-022-04980-y |
| Antibody | |
| Antibody: | BD55-3372 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Delta spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7WRO_H|Chain A[auth H]|3372H|Homo sapiens (9606) EVHLVESGGGLVKPGGSLRLSCAASGFTFSNYAMNWVRQAPGKGLQWVSSITGSSSFIFYADSVKGRFTIVRDNAQNSLYLQMNSLRDEDTAVYYCARERDDYDTRLDWGQGTLVTVS |
Light Chain: L
Mutation: NULL
| >7WRO_L|Chain B[auth L]|3372L|Homo sapiens (9606) PMLTQPPSVSGAPGQTVTISCVGSSSNIGAGYEVHWYQQLPGTAPKRLLSGNSDRPSGVPDRFSGSKSGTSASLAITGLQADDEADYYCQSYDSSLSLSAVVFGGGTKLTV |
Antigen
Chain: R
Mutation: L119R/T145K
| >7WRO_R|Chain C[auth R]|Spike protein S1|Severe acute respiratory syndrome coronavirus (2901879) NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYRYRLFRKSNLKPFERDISTEIYQAGSKPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFE |
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)
| H: ASN50 ALA52 THR71 GLY72 SER73 SER74 SER75 PHE76 GLU118 ASP120 ASP121 TYR122 ASP123 L: ALA50 GLY51 TYR52 GLU53 TYR112 SER114 LEU116 SER119 R: ALA372 SER373 ARG403 GLY404 ASP405 VAL407 ARG408 GLN409 ASN437 ASN439 GLN498 PRO499 THR500 ASN501 GLY502 VAL503 GLY504 TYR505 GLN506 TYR508 |
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)
