Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2264 |
| PDBID: | 6H6Y |
| Chains: | F_B |
| Organism: | Norovirus Hu/1968/US, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.58 |
| Reference: | 10.1128/JVI.02005-18 |
| Antibody | |
| Antibody: | Nano-7 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Norovirus Capsid protein VP1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: F
Mutation: NULL
| >6H6Y_F|Chain E, F, G, H|Nanobody (VHH) Nano-7|Vicugna pacos (30538) QVQLQESGGGLVQAGGSLRLSCAVSGRTFSNYYSGWFRQAPGKEREFLASIRWSDSTTNYADSVKGRFTISRDTAKNTVYLQMNSLKLEDTAVYHCAARRLATYDYWGQGTQVTVSSGRYPYDVPDYGSGRA |
Antigen
Chain: B
Mutation: NULL
| >6H6Y_B|Chain A, B, C, D|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)
| F: GLN1 VAL24 SER25 GLY26 ARG27 THR28 PHE29 SER30 ASN31 ARG52 TRP53 SER54 ASP55 ARG72 THR74 ASN77 ARG100 LEU101 THR103 ASP105 TYR106 B: GLY274 ARG275 LEU276 VAL277 GLY278 THR279 THR280 PRO281 VAL282 GLU303 ASP305 THR307 PRO308 PHE309 HIS310 PRO311 PHE312 GLU313 GLY314 PRO315 ALA316 PRO317 ILE318 HIS404 LEU405 ALA406 ALA446 GLN449 |
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)
