Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3839 |
| PDBID: | 7K23 |
| Chains: | NO_F |
| Organism: | Rattus norvegicus, Alphapolyomavirus muris |
| Method: | EM |
| Resolution (Å): | 3.30 |
| Reference: | 10.7554/eLife.61056 |
| Antibody | |
| Antibody: | 8A7H5 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Murine polyomavirus hexavalent capsomer capsid protein VP1 |
| Antigen mutation: | No |
| Durg Target: | P49302 |
Sequence information
Antibody
Heavy Chain: N
Mutation: NULL
| >7K23_N|Chain A[auth L2], H[auth L3], J[auth L4], L[auth L5], N[auth L6]|8A7H5 Fab light chain|Rattus norvegicus (10116) DIVMTQSPTSMSISVGDRVTMNCRASQNVYSNVDWYQQKTGQSPKLVIYKASNRYTGVPDRFTGSGSGTYFTLTITNIQTEDLAVYYCLQSNAFPFTFGSGTKLETTRA |
Light Chain: O
Mutation: NULL
| >7K23_O|Chain B[auth H2], I[auth H3], K[auth H4], M[auth H5], O[auth H6]|8A7H5 Fab heavy chain|Rattus norvegicus (10116) EESGGGLVQPGKSLKLSCSASGFTFSSYGMHWIRQVPGKGLDWVAYISSASDTFYADAVKERFTISRDNAKNTLYLRLNSLKSEDTAIYYCARTRYPTDHFYDWFPYWGQGTLVTVS |
Antigen
Chain: F
Mutation: NULL
| >7K23_F|Chain C[auth A], D[auth B], E[auth C], F[auth D], G[auth E]|Capsid protein VP1|Mus musculus polyomavirus 1 (1891730) APKRKSGVSKCETKCTKACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPENNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPGN |
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)
| N: GLN27 ASN28 TYR30 LYS50 ASN92 ALA93 PHE94 O: THR24 SER26 SER27 SER49 ALA50 ASP52 PHE54 ASN69 ALA70 TYR96 PRO97 THR98 ASP99 HIS100 PHE101 TYR102 ASP103 TRP104 F: GLN59 THR67 GLU68 GLY70 TYR72 ARG77 GLY78 ASN80 LEU81 THR83 GLU87 SER89 GLU91 ASN93 LYS186 THR291 ASN293 TYR294 VAL296 HIS298 |
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)
