Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7479 |
| PDBID: | 6OBC |
| Chains: | B_A |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.76 |
| Reference: | 10.1016/j.jmb.2020.01.006 |
| Antibody | |
| Antibody: | V2A11 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricin A chain |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >6OBC_B|Chain B|VHH antibody|Vicugna pacos (30538) QVQLAETGGGLVQPGGARTLSCAASESISSFYFMGWYRQAPGKPRELVAEISNYGRTDYGDSLKGRFTISRDNAANTVNLQMNNLAPEDTALYYCNARKWERSVLEDYWGQGTQVTVSS |
Antigen
Chain: A
Mutation: NULL
| >6OBC_A|Chain A|Ricin A chain|Ricinus communis (3988) QYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPP |
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: SER30 TYR32 PHE33 TYR37 PRO44 ARG45 GLU46 LEU47 ASN53 TYR54 ARG56 ASP58 ARG98 TRP100 GLU101 ARG102 SER103 VAL104 LEU105 GLU106 ASP107 TRP109 A: ARG48 ASP75 THR77 ASN78 TYR80 ASP96 ASN97 ASP100 ASN122 TYR123 ASP124 GLU127 GLN128 LEU133 ARG134 GLU135 ARG180 GLU208 ASN209 SER210 TRP211 GLY212 ARG213 ALA227 SER228 PRO229 GLN231 LYS239 TYR243 VAL256 ARG258 |
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)
