Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2272 |
| PDBID: | 6H71 |
| Chains: | D_B |
| Organism: | Norovirus Hu/1968/US, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.31 |
| Reference: | 10.1128/JVI.02005-18 |
| Antibody | |
| Antibody: | Nano-94 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Norovirus Capsid protein VP1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6H71_D|Chain C, D|Nanobody (VHH) Nano-94|Vicugna pacos (30538) QVQLQESGGGLVQAGGSLRLSCAASGRMFSINSMGWYRQAPGKERELVATISEAGTTTYADSVRGRFTIARDNAKNTVYLQMNSLNPEDTAVYYCNAYIQLDSTIWFRAYWGQGTQVTVSSGRYPYDVPDYGSGRA |
Antigen
Chain: B
Mutation: NULL
| >6H71_B|Chain A, B|Capsid protein VP1|Norwalk virus (strain GI/Human/United States/Norwalk/1968) (524364) KTRPFTLPNLPLSSLSNSRAPLPISSIGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHINMTQFGHSSQTQYDVDTTPDTFVPHLGSIQANGIGSGNYVGVLSWISPPSHPSGSQVDLWKIPNYGSSITEATHLAPSVYPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHLASEQAPTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVSRFYQLKPVGT |
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: GLN1 VAL2 ARG27 ASN32 SER33 TYR98 GLN100 LEU101 ASP102 SER103 THR104 ILE105 TRP106 PHE107 ARG108 ALA109 TYR110 TRP111 B: SER262 VAL263 GLN264 GLY325 THR347 THR348 PRO349 ASP350 PHE352 VAL353 PRO379 HIS381 PRO382 SER385 GLN386 ASP388 TRP390 LYS391 ILE392 PRO393 ASN394 GLY396 SER397 SER398 ILE399 THR400 LEU405 SER408 |
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)
