Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3847 |
| PDBID: | 7K65 |
| Chains: | B_A |
| Organism: | Mus musculus, Lama glama |
| Method: | EM |
| Resolution (Å): | 3.40 |
| Reference: | 10.1073/pnas.2011560117 |
| Antibody | |
| Antibody: | TI23 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Hedgehog receptor Patched (PTCH1) |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7K65_B|Chain B|nanobody TI23|Lama glama (9844) QVQLQESGGGLVQAGGSLRLSCAASGNIFAYYIMGWYRQAPGKERELVATIDIGGNTNYADSVKGRFTISRDNAKNNVYLQMNSLKPEDTAVYYCAVQAVPIRYRRYWGQGTQVTVSSHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >7K65_A|Chain A|Protein patched homolog 1|Mus musculus (10090) MASAGNAAGALGRQAGGGRRRRTGGPHRAAPDRDYLHRPSYCDAAFALEQISKGKATGRKAPLWLRAKFQRLLFKLGCYIQKNCGKFLVVGLLIFGAFAVGLKAANLETNVEELWVEVGGRVSRELNYTRQKIGEEAMFNPQLMIQTPKEEGANVLTTEALLQHLDSALQASRVHVYMYNRQWKLEHLCYKSGELITETGYMDQIIEYLYPCLIITPLDCFWEGAKLQSGTAYLLGKPPLRWTNFDPLEFLEELKKINYQVDSWEEMLNKAEVGHGYMDRPCLNPADPDCPATAPNKNSTKPLDVALVLNGGCQGLSRKYMHWQEELIVGGTVKNATGKLVSAHALQTMFQLMTPKQMYEHFRGYDYVSHINWNEDRAAAILEAWQRTYVEVVHQSVAPNSTQKVLPFTTTTLDDILKSFSDVSVIRVASGYLLMLAYACLTMLRWDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLAHAFSETGQNKRIPFEDRTGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQAAVVVVFNFAMVLLIFPAILSMDLYRREDRRLDIFCCFTSPCVSRVIQVEPQAYTEPMQSTVQLRTEYDPHTHVYYTTAEPRSEISVQPVTVTQDNLSCQSPESTSSTRDLLSQFSDSSLHCLEPPCTKWTLSSFAEKHYAPFLLKPKAKVVVILLFLGLLGVSLYGTTRVRDGLDLTDIVPRETREYDFIAAQFKYFSFYNMYIVTQKADYPNIQHLLYDLHKSFSNVKYVMLEENKQLPQMWLHYFRDWLQGLQDAFDSDWETGRIMPNNYKNGSDDGVLAYKLLVQTGSRDKPIDISQLTKQRLVDADGIINPSAFYIYLTAWVSNDPVAYAASQANIRPHRPEWVHDKADYMPETRLRIPAAEPIEYAQFPFYLNGLRDTSDFVEAIEKVRVICNNYTSLGLSSYPNGYPFLFWEQYISLRHWLLLSISVVLACTFLVCAVFLLNPWTAGIIVMVLALMTVELFGMMGLIGIKLSAVPVVILIASVGIGVEFTVHVALAFLTAIGDKNHRAMLALEHMFAPVLDGAVSTLLGVLMLAGSEFDFIVRYFFAVLAILTVLGVLNGLVLLPVLLSFFGPCPEVSPANGLNRLPTPSPEPPPSVVRFAVPPGHTNNGSDSSDSEYSSQTTVSGISEELRQYEAQQGAGGPAHQVIVEATENPVFARSTVVHPDSRHQPPLTPRQQPHLDSGSLSPGRQGQQPRRDMDEKTTGWRGGHVV |
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: GLN1 VAL2 SER25 GLY26 ASN27 ILE28 PHE29 ALA30 TYR31 TYR32 ILE53 ARG71 ASN73 ALA74 LYS75 ASN76 ALA99 VAL100 PRO101 ILE102 ARG103 TYR104 ARG105 ARG106 TYR107 A: GLN182 HIS187 THR199 GLY200 TYR201 MET202 GLN204 ILE205 ILE206 GLU207 TYR208 LEU209 ALA232 TYR233 LEU234 LEU235 GLY236 LEU240 PHE250 LEU254 ILE257 TYR259 HIS361 PHE362 GLY364 TYR365 ASP366 TYR367 |
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)
