Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3983 |
| PDBID: | 7KN6 |
| Chains: | C_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Vicugna pacos, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.55 |
| Reference: | 10.1126/science.abe6230 |
| Antibody | |
| Antibody: | V 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: C
Mutation: NULL
| >7KN6_C|Chain B[auth C]|VHH V|Vicugna pacos (30538) QVQLVETGGGLVQPGGSLRLSCAASGFTFSSYAMGWARQVPGKGLEWVSYIYSDGSTEYQDSVKGRFTISRDNAKSTVYLQMNSLKPEDTAVYYCATEGSLGGWGRDFGSWGQGTQVTVSSGGLPETGGHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >7KN6_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)
| C: GLN39 GLY42 LYS43 GLY44 LEU45 GLU46 TRP47 GLU58 TYR59 GLN60 ASP61 TYR91 GLU95 GLY96 SER97 GLY99 PHE100 GLY101 SER102 TRP103 GLY104 A: TYR369 ASN370 SER371 ALA372 SER373 PHE374 SER375 THR376 PHE377 LYS378 CYS379 TYR380 GLY381 VAL382 SER383 PRO384 GLY404 ASP405 VAL407 ARG408 ALA411 PRO412 GLN414 ASN437 ASN439 ASN440 VAL503 GLY504 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)
