Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7398 |
| PDBID: | 6B73 |
| Chains: | D_A |
| Organism: | Escherichia coli, Homo sapiens, Lama glama |
| Method: | XRD |
| Resolution (Å): | 3.10 |
| Reference: | 10.1016/j.cell.2017.12.011 |
| Antibody | |
| Antibody: | Nb39 nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | The Kappa opioid receptor |
| Antigen mutation: | Yes |
| Durg Target: | P41145; P0ABE7; |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6B73_D|Chain C, D|Nanobody|Lama glama (9844) MAQVQLVESGGGLVRPGGSLRLSCVDSERTSYPMGWFRRAPGKEREFVASITWSGIDPTYADSVADRFTTSRDVANNTLYLQMNSLKHEDTAVYYCAARAPVGQSSSPYDYDYWGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: A
Mutation: M12W/H107I/R111L/I195L
| >6B73_A|Chain A, B|Soluble cytochrome b562, kappa-type opioid receptor|Escherichia coli (562) GGTTMADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQKATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRNAYIQKYLGSISPAIPVIITAVYSVVFVVGLVGNSLVMFVIIRYTKMKTATNIYIFNLALADALVTTTMPFQSTVYLMNSWPFGDVLCKIVLSIDYYNMFTSIFTLTMMSVDRYIAVCHPVKALDFRTPLKAKIINICIWLLSSSVGISAIVLGGTKVREDVDVIECSLQFPDDDYSWWDLFMKICVFIFAFVIPVLIIIVCYTLMILRLKSVRLLSGSREKDRNLRRITRLVLVVVAVFVVCWTPIHIFILVEALGSTSHSTAALSSYYFCIALGYTNSSLNPILYAFLDENFKRCFRDFCFPLKMRMERQSTS |
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: ARG21 ARG29 TYR32 ILE51 THR52 TRP53 SER54 GLY55 ILE56 ASP57 PRO58 THR59 TYR60 ASP62 ALA65 ASP66 ARG67 PHE68 THR69 THR70 SER71 ARG72 ASP73 VAL74 ALA75 TYR80 GLN82 ASN84 PRO101 TYR109 A: LYS91 THR92 THR94 ARG156 ALA159 VAL160 PRO163 VAL164 ALA166 LEU167 ASP168 ARG170 THR171 PRO172 MET249 ARG252 LEU253 SER255 VAL256 ARG257 SER262 GLU264 LYS265 ASN268 LEU269 ILE272 ASP334 GLU335 ASN336 ARG339 |
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)
