Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1149 |
| PDBID: | 4Z9K |
| Chains: | B_A |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.50 |
| Reference: | 10.1002/prot.25062 |
| Antibody | |
| Antibody: | F5 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricin |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >4Z9K_B|Chain B|VHH2(F5) antibody|Vicugna pacos (30538) VQLVESGGGLVQPGGSLRLSCAASGFTLDDYAIGWFRQVPGKEREGVACVKDGSTYYADSVKGRFTISRDNGAVYLQMNSLKPEDTAVYYCASRPCFLGVPLIDFGSWGQGTQVTV |
Antigen
Chain: A
Mutation: NULL
| >4Z9K_A|Chain A|Ricin|Ricinus communis (3988) KQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAP |
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: VAL2 GLN3 LEU4 GLY26 PHE27 ASP30 ASP31 TYR32 ALA33 LYS52 ASP53 ARG70 SER94 ARG95 PRO96 CYS97 PHE98 LEU99 PRO102 ILE104 ASP105 PHE106 SER108 A: TYR92 PHE93 HIS95 PRO96 ASP97 ASN98 GLN99 ALA102 GLU103 ILE105 THR106 GLN113 ASN114 ARG115 TYR116 THR117 PHE118 ALA119 PHE120 ARG126 TYR155 GLY158 LEU162 |
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)
