Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5540 |
| PDBID: | 7X4I |
| Chains: | G_C |
| Organism: | Severe acute respiratory syndrome coronavirus, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 3.38 |
| Reference: | 10.1038/s41421-022-00497-w |
| Antibody | |
| Antibody: | aSA3 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-1 spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: G
Mutation: NULL
| >7X4I_G|Chain E, F, G, H|nanobody aSA3|Vicugna pacos (30538) QVQLVESGGGLVQPGGSLRLSCAASGFTSDHYALAWFRQAPGKEREGVSCIDSDGNPFYADSVKGRFTGSRDNAKNTVYLQMNSLKLEDTAVYYCAAGLWYGRSLNSFDYDYWGQGTQVTVSS |
Antigen
Chain: C
Mutation: NULL
| >7X4I_C|Chain A, B, C, D|Spike glycoprotein|Severe acute respiratory syndrome coronavirus (2901879) TNLCPFGEVFNATKFPSVYAWERKKISNCVADYSVLYNSTFFSTFKCYGVSATKLNDLCFSNVYADSFVVKGDDVRQIAPGQTGVIADYNYKLPDDFMGCVLAWNTRNIDATSTGNHNYKYRYLRHGKLRPFERDISNVPFSPDGKPCTPPALNCYWPLNDYGFYTTTGIGYQPYRVVVLSFELLNAPATVCGPKLSTDLIKNQ |
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)
| G: GLU44 ARG45 ASP52 ASP54 ASN56 PHE58 ASP61 LYS64 LEU99 TRP100 TYR101 GLY102 ARG103 SER104 LEU105 ASN106 SER107 PHE108 ASP109 TYR110 ASP111 C: TYR356 ASN357 SER358 THR359 PHE361 SER362 THR363 PHE364 LYS365 CYS366 TYR367 GLY368 VAL369 SER370 ALA371 THR372 GLY391 ASP392 VAL394 ARG395 GLY488 ILE489 GLY490 TYR494 |
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)
