Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 809 |
| PDBID: | 4LGS |
| Chains: | B_A |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.70 |
| Reference: | 10.1016/j.jmb.2014.05.026 |
| Antibody | |
| Antibody: | VHH4 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricin |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >4LGS_B|Chain B|Camelid nanobody (VHH4)|Vicugna pacos (30538) QVQLVESGGGLVQAGGSLSLSCAASGGDFSRNAMAWFRQAPGKEREFVASINWTGSGTYYLDSVKGRFTISRDNAKNALYLQMNNLKPEDTAVYYCARSTVFAEITGLAGYQSGSYDYWGQGTQVTVSS |
Antigen
Chain: A
Mutation: NULL
| >4LGS_A|Chain A|Ricin|Ricinus communis (3988) KQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQ |
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: ARG31 ASN32 TRP53 THR54 THR100 VAL101 PHE102 ALA103 GLU104 ILE105 THR106 GLY107 LEU108 ALA109 SER115 A: TYR91 HIS94 PRO95 ALA101 THR105 GLN112 ASN113 ARG114 TYR115 THR116 PHE117 ALA118 PHE119 ARG125 TYR154 LEU161 |
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)
