Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3243 |
| PDBID: | 6XW7 |
| Chains: | D_B |
| Organism: | Murine norovirus 1, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.15 |
| Reference: | 10.1128/JVI.00660-20 |
| Antibody | |
| Antibody: | NB-5829 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | murine norovirus P domain |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6XW7_D|Chain E[auth C], F[auth D], G, H|Nanobody NB-5829|Vicugna pacos (30538) QVQLQESGGGLVEAGGSLRLSCLGSGLTFSRYAMGWFRQAPGKEREFVASITRSGGSPNYADSVKGRFTISRDNAKNTVYLQMSSLKPEDTAVYYCAGRGSVYYDVWGQGTQVTVSSHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >6XW7_B|Chain A, B, C[auth E], D[auth F]|Capsid protein|Murine norovirus 1 (223997) SIYRMVDLPVIQPRLCTHARWPAPVYGLLVDPSLPSNPQWQNGRVHVDGTLLGTTPISGSWVSCFAAEAAYKFQSGTGEVATFTLIEQDGSAYVPGDRAAPLGYPDFSGQLEIEVQTETTKTGDKLKVTTFEMILGPTTNADQAPYQGRVFASVTAAASLDLVDGRVRAVPRSIYGFQDTIPEYNDGLLVPLAPPIGPFLPGEVLLRFRTYMRQIDTADAAAEAIDCALPQEFVSWFASNAFTVQSEALLLRYRNTLTGQLLFECKLYNEGYIALSYSGSGPLTFPTDGIFEVVSWVPRLYQLASVGSL |
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: SER30 ARG31 ALA33 PHE37 ARG45 GLU46 PHE47 SER50 THR52 ARG53 SER54 GLY56 SER57 ASN59 TYR60 ALA61 ASP62 LYS65 ARG99 SER101 VAL102 TYR103 TYR104 B: HIS270 ASP272 GLY273 THR274 LEU275 LEU276 ILE281 TRP285 GLU311 ASP313 SER315 VAL318 PRO319 GLY320 ASP321 ARG322 LEU326 LEU413 PRO415 LEU416 PRO418 ALA462 SER463 ASN464 ALA465 VAL468 GLU494 |
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)
