Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7495 |
| PDBID: | 6SGE |
| Chains: | D_C |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 1.50 |
| Reference: | 10.1016/j.chembiol.2019.08.009 |
| Antibody | |
| Antibody: | B6 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Rho-related GTP-binding protein RhoB |
| Antigen mutation: | Yes |
| Durg Target: | P62745; P62745; |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6SGE_D|Chain B, D|Nanobody B6|Homo sapiens (9606) AVQLQASGGGFVQPGGSLRLSCAASGYGSTIETMGWFRQAPGKEREFVSAISRAPGPSQYYADSVKGRFTISRDNSKNTVYLQMNSLRAEDTATYYCAPINNRTMQDSMFLWNYWGQGTQVTVSSAAAENLYFQ |
Antigen
Chain: C
Mutation: Q63L
| >6SGE_C|Chain A, C|Rho-related GTP-binding protein RhoB|Homo sapiens (9606) MAAIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQKRY |
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)
| D: GLN3 GLN39 PRO41 THR94 TYR96 ASN102 ARG103 GLN106 ASP107 SER108 MET109 PHE110 LEU111 TRP112 ASN113 TYR114 TRP115 GLY116 GLN117 GLY118 THR119 GLN120 C: ASP13 GLY14 ALA15 CYS16 GLU32 VAL33 TYR34 PRO36 LEU63 GLU64 SER85 ASP87 SER88 SER91 LYS118 LEU121 HIS126 VAL127 GLU130 LEU131 ARG133 MET134 |
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)
