Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3985 |
| PDBID: | 7KN7 |
| Chains: | B_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Vicugna pacos, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.73 |
| Reference: | 10.1126/science.abe6230 |
| Antibody | |
| Antibody: | W VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7KN7_B|Chain B|VHH W|Vicugna pacos (30538) QVQLVESGGGLVQPGGSLRLSCAASGFTLDYYAIGWFRQAPGKEREGVSCISSSGDSTHYVDSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAAQSGSYYWCGSDWHEYDYRGQGTQVTVSSGGLPETGGHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >7KN7_A|Chain A|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) RVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFSGHHHHHH |
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 B: TYR31 TYR32 SER52 GLN95 SER96 GLY97 SER98 TYR99 ASP101 ARG103 A: TYR369 ASN370 SER371 ALA372 SER373 PHE374 SER375 THR376 PHE377 LYS378 SER383 PRO384 THR385 GLY404 ASP405 ARG408 ASN437 GLY502 VAL503 GLY504 TYR508 |
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)
