Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3854 |
| PDBID: | 7K7I |
| Chains: | JK_B |
| Organism: | Salmonella enterica subsp. enterica serovar Typhi, Mus musculus |
| Method: | EM |
| Resolution (Å): | 3.13 |
| Reference: | 10.1016/j.celrep.2021.109654 |
| Antibody | |
| Antibody: | TyTx4 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Putative pertussis-like toxin subunit |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: J
Mutation: NULL
| >7K7I_J|Chain G[auth H], I[auth J], K[auth M], M[auth P], O[auth X]|Fab Heavy Chain Variable Domain|Mus musculus (10090) VKLVESGGGLVKPGGSLKLSCAASGFAFSTYDMSWVRQTPEKRLEWVATISGGGSYTYYPDIVKGRFTISRDNARNTLYLQMSSLRSEDTALYFCVRQYYGSSNYGMDYWGQGTSVTVS |
Light Chain: K
Mutation: NULL
| >7K7I_K|Chain F[auth K], H[auth L], J[auth N], L[auth Q], N[auth Y]|Fab Light Chain Variable Domain|Mus musculus (10090) DILLTQSPSILSVSPGERVSFSCRASQSIGTSIHWYQQKPNGSPRLLIQYASQSISGIPSRFSGSGSGTDFTLTINSVESEDIADYYCQHTNGWPYTFGWGDHAGNKP |
Antigen
Chain: B
Mutation: NULL
| >7K7I_B|Chain A, B, C, D, E|Putative pertussis-like toxin subunit|Salmonella typhi (90370) EWTGDNTNAYYSDEVISELHVGQIDTSPYFCIKTVKANGSGTPVVACAVSKQSIWAPSFKELLDQARYFYSTGQSVRIHVQKNIWTYPLFVNTFSANALVGLSSCSATQCFGPK |
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)
| K: TYR50 GLN53 TRP94 J: SER29 THR30 TYR31 ASP32 SER51 GLY52 GLY53 SER55 TYR56 TYR58 TYR99 TYR100 GLY101 SER102 SER103 ASN104 TYR105 B: GLU24 THR30 ILE47 ASP48 THR49 LYS74 GLN75 SER76 ILE77 TRP78 ALA79 GLN104 LYS105 ASN106 ILE107 TRP108 THR109 TYR110 PRO111 LEU112 ALA119 |
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)
