Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1451 |
| PDBID: | 5J57 |
| Chains: | B_A |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.70 |
| Reference: | 10.1074/jbc.M116.758102 |
| Antibody | |
| Antibody: | V5E1 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricin |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >5J57_B|Chain B|VHH single chain antibody V5E1|Vicugna pacos (30538) VQLAETGGGLVEPGGSLRLSCAAPEFRLQYYTAGWFRQAPGKEREWVACISAGGGVTYYTGSVQGRFTISRDNAKRTVYLQMDSLKPEDTAVYSCAADLEYSQIMPSCRGSYGVRGQGTQVTVSSAH |
Antigen
Chain: A
Mutation: NULL
| >5J57_A|Chain A|Ricin|Ricinus communis (3988) MIFPKQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQF |
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: GLN3 PHE27 ARG28 GLN30 TYR31 TYR32 LEU100 GLU101 TYR102 SER103 GLN104 SER112 GLY114 VAL115 A: ALA14 GLY15 ALA16 THR17 VAL18 GLN19 SER20 HIS65 ASN141 GLU145 ILE192 ARG193 TYR194 ASN195 ARG196 |
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)
