Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5034 |
| PDBID: | 7TH3 |
| Chains: | B_A |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.29 |
| Reference: | 10.1016/j.jbc.2022.101742 |
| Antibody | |
| Antibody: | V9F6 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricinus communis ricin chain A |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7TH3_B|Chain B|VHH antibody|Vicugna pacos (30538) QVQLVETGGGSVQAGDSLTLSCAASERIFSHYAMGWYRQVPGKEREPVAALRLKGTETNYADSVEGRFTISRDNAKNTMYLRMSSLKPEDTAVYYCAAGSYAAILYAPSYWGQGTQVTVSSEPKTPKPQ |
Antigen
Chain: A
Mutation: NULL
| >7TH3_A|Chain A|Ricin chain A|Ricinus communis (3988) IFPKQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQF |
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)
| Chain residues position delta_SASA
: residuesposition B: ARG27 SER30 HIS31 TYR32 ALA33 ARG52 LEU53 SER100 TYR101 ALA102 TYR106 ALA107 SER109 TYR110 A: ARG26 ARG29 GLY30 THR34 GLY35 ALA36 ASP37 VAL38 ARG39 HIS40 GLU41 PRO43 GLN182 SER246 ILE249 PRO250 ALA253 PRO261 PRO262 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
