Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6979 |
| PDBID: | 4NBZ |
| Chains: | D_C |
| Organism: | Clostridioides difficile, Lama glama |
| Method: | XRD |
| Resolution (Å): | 1.75 |
| Reference: | 10.1074/jbc.M113.505917 |
| Antibody | |
| Antibody: | A26.8 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Rho-glucosylating toxins TcdA1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >4NBZ_D|Chain B, D|A26.8 VHH|Lama glama (9844) QVKLEESGGGLVQAGGSLRLSCAASERTFSRYPVAWFRQAPGAEREFVAVISSTGTSTYYADSVKGRFTISRDNAKVTVYLQMNNLKREDTAVYFCAVNSQRTRLQDPNEYDYWGQGTQVTVSSGSEQKLISEGSEQKLISEEDLNHHHHHH |
Antigen
Chain: C
Mutation: NULL
| >4NBZ_C|Chain A, C|TcdA|Clostridium difficile (1496) MHHHHHHTGWVTIDGRRYYFEPNTAIGANGYKIIDNKNFYFRNGLPQIGVFKGPNGFEYFAPANTDANNIDGQAIRYQNRFLHLLGNIYYFGNNSKAVTGWQTINGNMYYFMPDTAMAAAGGLFEIDGVIYFFGVDGVKAPGIY |
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: PRO33 VAL50 SER52 SER53 THR54 SER57 THR58 TYR59 GLN101 ARG102 THR103 ARG104 LEU105 GLN106 C: MET111 ALA119 GLY120 GLY121 LEU122 PHE123 GLU124 GLY127 VAL128 ILE129 PHE131 TYR143 |
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)
