Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6144 |
| PDBID: | 8EN3 |
| Chains: | D_B |
| Organism: | Norovirus, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.10 |
| Reference: | 10.1128/jvi.01833-22 |
| Antibody | |
| Antibody: | 45 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
| >8EN3_D|Chain C, D|Nanobody 45|Vicugna pacos (30538) QVQLQESGGGLVQAGGSLRLSCTVSGRTDSESTMGWFRQAAGKGREFVAAMNWRYATTYHTDSVKGRFTISKDSAKNTMYLQMNSLKPEDTAVYYCAHRYIYGSLSDSGSYDNWGQGTQVTVSSAAAYPYDVPDYGSHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >8EN3_B|Chain A, B|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: GLU31 GLU46 PHE47 TYR55 THR57 THR58 TYR59 HIS60 THR61 ASP62 SER63 LYS65 ILE101 TYR102 GLY103 SER104 LEU105 SER106 ASP107 SER108 SER110 B: GLN296 ARG297 ARG299 VAL330 GLN352 TRP354 ARG372 ILE373 SER374 ASN376 ASN392 ASP393 ASP394 ASP395 ASP396 HIS398 SER441 GLY442 GLY443 TYR444 ASN445 |
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)
