Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 808 |
| PDBID: | 4LGR |
| Chains: | B_A |
| Organism: | Ricinus communis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.65 |
| Reference: | 10.1016/j.jmb.2014.05.026 |
| Antibody | |
| Antibody: | VHH3 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ricin |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >4LGR_B|Chain B|Camelid nanobody (VHH3)|Vicugna pacos (30538) VQLVESGGGLVQPGGSLRLHCAASGSIASIYRTCWYRQGTGKQRELVAAITSGGNTYYADSVKGRFTISRDNAKNTIDLQMNSLKPEDTAVYYCNADEAGIGGFNDYWGQGTQVTVSSAHHS |
Antigen
Chain: A
Mutation: NULL
| >4LGR_A|Chain A|Ricin|Ricinus communis (3988) QYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRC |
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: TYR32 ARG33 TYR37 LEU47 ALA50 THR52 SER53 GLY54 ASN56 THR57 TYR58 ASP98 ALA100 GLY101 ILE102 GLY103 GLY104 PHE105 TRP109 A: ASN88 SER89 TYR91 GLN112 ASN113 TYR115 THR116 PHE117 ALA118 PHE119 ARG125 LEU129 TYR153 TYR154 SER155 THR156 GLY157 GLY158 THR159 GLN160 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)
