Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7208 |
| PDBID: | 7ME7 |
| Chains: | B_R |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Lama glama |
| Method: | EM |
| Resolution (Å): | 3.73 |
| Reference: | 10.1038/s41467-021-24963-3 |
| Antibody | |
| Antibody: | 105 Nanobody |
| 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
| >7ME7_B|Chain C[auth B]|Nanobody Nb105|Lama glama (9844) VQLVESGGGLVQAGGSLRLSCAVSGRTFSTYGMAWFRQAPGKERDFVATITRSGETTLYADSVKGRFTISRDNAKNTVYLQMNSLKIEDTAVYYCAVRRDSSWGYSRDLFEYDYWGQGTQVTVS |
Antigen
Chain: R
Mutation: NULL
| >7ME7_R|Chain A[auth R]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG |
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: SER54 THR57 SER102 SER103 TRP104 TYR106 SER107 ARG108 ASP109 PHE111 GLU112 R: PHE374 SER375 THR376 PHE377 LYS378 CYS379 TYR380 VAL382 SER383 PRO384 THR385 GLY404 ASP405 VAL407 ARG408 VAL503 GLY504 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)
