Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5905 |
| PDBID: | 8CWV |
| Chains: | B_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Lama glama, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.51 |
| Reference: | 10.1016/j.celrep.2022.111004 |
| Antibody | |
| Antibody: | 2-31 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
| >8CWV_B|Chain B|VHH 2-31|Lama glama (9844) MASMTGGQQMGRDPNSQVQLVESGGGLVQAGESLRLSCAASKPTFRNFAAGWFRQTPGKDREFVAVIEYDGDSAYYADSVKGRFTISRDNAKNTVYLQMNRLKPGDTAVYICAIGGNHYDPSKYYTADEYDYWGQGTQVTVSSKLAAALEHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >8CWV_A|Chain A|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSGHHHHHH |
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: VAL2 LYS26 THR28 ASN31 PHE32 TYR52 ASP53 GLY96 ASN97 HIS98 TYR99 ASP101 TYR102 TRP103 A: TYR369 SER375 THR376 PHE377 LYS378 CYS379 TYR380 GLY381 VAL382 SER383 PRO384 THR385 ARG408 ALA411 PRO412 GLY413 GLN414 ASP427 ASP428 PHE429 THR430 |
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)
