Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6976 |
| PDBID: | 4NBX |
| Chains: | B_A |
| Organism: | Clostridioides difficile, Lama glama |
| Method: | XRD |
| Resolution (Å): | 1.75 |
| Reference: | 10.1074/jbc.M113.505917 |
| Antibody | |
| Antibody: | A20.1 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Rho-glucosylating toxins TcdA1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >4NBX_B|Chain B|A20.1 VHH|Lama glama (9844) QPAMAQAQVQLVESGGGLAQAGGSLRLSCAASGRTFSMDPMAWFRQPPGKEREFVAAGSSTGRTTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAAAPYGANWYRDEYAYWGQGTQVTVSSGQAGQGSEQKLISEEDLNHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >4NBX_A|Chain A|TcdA|Clostridium difficile (1496) HHHHHHTGWVTIDGRRYYFEPNTAIGANGYKIIDNKNFYFRNGLPQIGVFKGPNGFEYFAPANTDANNIDGQAIRYQNRFLHLLGNIYYFGNNSKAVTGWQTINGNMYYFMPDTAMAAAGGLFEIDGVIYFFGVDGVKAPGIY |
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)
| B: GLN8 VAL9 GLY33 ARG34 THR35 SER37 MET38 ASP39 PRO40 SER59 SER60 TYR66 PRO107 TYR108 GLY109 ALA110 ASN111 TRP112 TYR119 A: ILE47 TYR58 PRO61 ALA62 ASN63 THR64 ASN67 TYR76 ARG79 PHE80 LEU81 HIS82 LEU83 LEU84 GLY85 ILE87 ASN104 ASN106 TYR108 VAL134 ASP135 |
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)
