Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6985 |
| PDBID: | 4NC2 |
| Chains: | B_A |
| Organism: | Clostridioides difficile, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.50 |
| Reference: | 10.1074/jbc.M113.505917 |
| Antibody | |
| Antibody: | B39 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Rho-glucosylating toxins TcdB1 |
| Antigen mutation: | No |
| Durg Target: | P18177 |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >4NC2_B|Chain B|B39 VHH|Lama glama (9844) QVQLVESGGGLVQAGGSLRLSCAASGLTFSRYVMGWFRQAPGKEREFVAAITWGGTPNYADSVKGRFTISRDNSKNTQYLQMNSLKPEDTAVYYCAAGLGWDSRYSQSYNYWGQGTQVTVSSGSEQKLISEEDLNHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >4NC2_A|Chain A|Toxin B|Clostridium difficile (1496) MHHHHHHKGIMRTGLISFENNNYYFNENGEMQFGYINIEDKMFYFGEDGVMQIGVFNTPDGFKYFAHQNTLDENFEGESINYTGWLDLDEKRYYFTDEYIAATGSVIIDGEEYYFDPDTAQLVISE |
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: LEU27 THR28 ARG31 TYR32 VAL33 THR52 TRP53 GLY54 THR56 LEU99 GLY100 TRP101 ASP102 SER103 ARG104 TYR105 ASN110 TYR111 A: ARG12 LEU15 ILE16 SER17 ASN22 TYR23 ILE38 GLU39 LYS41 PHE43 PHE45 MET51 GLN68 ASN69 ASP72 GLU73 ASN74 PHE75 GLU76 |
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)
