Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6142 |
| PDBID: | 8EN0 |
| Chains: | D_A |
| Organism: | Vicugna pacos, Norovirus |
| Method: | XRD |
| Resolution (Å): | 2.99 |
| Reference: | 10.1128/jvi.01833-22 |
| Antibody | |
| Antibody: | 7 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Noroviruse GII.17 P domain |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >8EN0_D|Chain A[auth D]|Nanobody 7|Vicugna pacos (30538) QVQLQESGGGLVQAGGSLRLSCAASGRTFSSYRMGWYRQAPGKEREFVAAITGSGDSTNYADSVKGRFTVSGNSARNLVYLQMNSLKPEDTAVYLCVAYRTGGPPQWGQGTQVTVSSAAAYPYDVPDYGSHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >8EN0_A|Chain B[auth A]|Capsid protein VP1|Norovirus (142786) GSKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTTQLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGMVSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVNDDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIIDCLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVPANGHFRFDSWVNQFYSLAPM |
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)
| D: THR28 PHE29 SER30 TYR32 THR52 GLY53 ASP56 ARG100 THR101 GLY102 GLY103 PRO104 PRO105 GLN106 A: ARG297 VAL330 TRP354 ARG372 ILE373 SER374 ASN392 ASP393 ASP394 ASP395 ASP396 GLY397 SER441 GLY442 GLY443 TYR444 |
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)
