Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7074 |
| PDBID: | 5BOP |
| Chains: | C_D |
| Organism: | Lama glama, synthetic construct |
| Method: | XRD |
| Resolution (Å): | 1.95 |
| Reference: | 10.1016/j.jsb.2016.05.004 |
| Antibody | |
| Antibody: | 1 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Artificial protein Octarellin V.1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >5BOP_C|Chain A, C|Nanobody|Lama glama (9844) QVQLQESGGGLVQAGGSLRLSCAASGGTFSTYGMGWFRQAPGKEREFVAASSWTGANTYYADSVRGRFTISRDNAKNTVYLEMNSLKPEDTAVYYCAARRWLGGSYFDPGNYDFWGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: D
Mutation: NULL
| >5BOP_D|Chain B, D|Octarellin V.1|synthetic construct (32630) MAFLIVKGPSEKDLNPAVQIANEQDPSAIAFLKQFARNHEKAERFFELLVREGVEAIIIARGVSEREIEQAAKLAREKGFEALAFLAEYERRDRQFDDIIEYFERYGFKAVIVATGLDEKELKQAAQKIEEKGFKALAFSGRIDQENHNINDIFELLQRQGLRAIIAATGLSERELSWAQRAAQQYGLDIIFANGQFDEQDNRFKHFLEPIRRQGAA |
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)
| C: THR28 PHE29 SER30 TYR32 SER52 TRP53 THR54 ALA56 ASN57 TYR59 ARG99 ARG100 TRP101 LEU102 GLY104 SER105 TYR106 PHE107 ASP113 PHE114 D: ILE5 ASN38 HIS39 ALA42 GLU43 PHE45 PHE46 LEU49 LEU137 PHE139 SER140 HIS148 ASN149 ASN151 ASP152 ILE153 GLU155 LEU156 GLN158 ARG159 GLN185 TYR186 |
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)
