Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5033 |
| PDBID: | 7TH2 |
| Chains: | D_B |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.84 |
| Reference: | 10.1016/j.jbc.2022.101742 |
| Antibody | |
| Antibody: | V9F9 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricinus communis ricin chain A |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >7TH2_D|Chain C, D|VHH antibody|Vicugna pacos (30538) QVQLAESGGGLVQPGGSLRLSCVASPSLDYYGIGWFRQAPGKEREGVSCITGSEGSTYYADSVKGRFTISRDNAKNTVFLQMDSLKPEDTAVYYCAAADPLPLVCTWGDEYDYWGQGTQVTVSSEPKTPKPQ |
Antigen
Chain: B
Mutation: NULL
| >7TH2_B|Chain A, B|Ricin A chain|Ricinus communis (3988) AMIFPKQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQF |
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: ASP29 TYR30 TYR31 THR51 GLY52 SER53 GLU54 SER56 THR57 TYR58 LYS64 ASP99 PRO100 LEU101 LEU103 VAL104 CYS105 TRP107 GLU110 TYR113 B: VAL18 GLN19 THR22 ASN23 ARG26 ARG29 GLU41 GLN182 TYR183 GLU185 GLY186 GLU187 ARG189 THR190 ARG193 TYR194 SER203 LEU207 LEU232 GLN233 ARG234 ARG235 PHE240 ASP244 SER246 ILE247 ILE249 PRO250 ILE251 ALA253 |
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)
