Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6984 |
| PDBID: | 4NC1 |
| Chains: | F_B |
| Organism: | Clostridioides difficile NAP07, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.61 |
| Reference: | 10.1074/jbc.M113.505917 |
| Antibody | |
| Antibody: | A26.8 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Rho-glucosylating toxins TcdA2 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: F
Mutation: NULL
| >4NC1_F|Chain C[auth E], F|A26.8 VHH|Lama glama (9844) QVKLEESGGGLVQAGGSLRLSCAASERTFSRYPVAWFRQAPGAEREFVAVISSTGTSTYYADSVKGRFTISRDNAKVTVYLQMNNLKREDTAVYFCAVNSQRTRLQDPNEYDYWGQGTQVTVSSHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >4NC1_B|Chain A, D[auth B]|Cell wall-binding repeat protein|Clostridium difficile (525258) MHHHHHHSKAVTGMRTIDGKKYYFNTNTAEAATGWQTIDGKKYYFNTNTSIASTGYTIINDKHFYFNTDGIMQIGVFKGPDGFEYFAPANTDANNIEGQAIRYQNRFLYLHDNIYYFGNNSKAATGWVTIDGRRYYFEPNTAIGANGYKIIDNKNFYFRNGLPQIGVFKGPNGFEYFAPANTDANNIDGQAIRYQNRFLHLLGNIYYFGNNSKAVTGWQTINGNMYYFMPDTAMAAAGGLFEIDGVIYFFGVDGVKAPGIY |
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)
| F: PRO33 PHE47 VAL50 SER52 SER53 THR54 THR56 SER57 THR58 TYR59 ARG102 THR103 ARG104 LEU105 GLN106 B: MET229 ALA237 GLY238 GLY239 LEU240 PHE241 GLU242 ILE243 GLY245 VAL246 ILE247 TYR248 PHE249 ALA257 GLY259 |
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)
