Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2806 |
| PDBID: | 6RTY |
| Chains: | B_A |
| Organism: | Homo sapiens, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.10 |
| Reference: | 10.1038/s41589-019-0370-y |
| Antibody | |
| Antibody: | NB64 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Patched-1 ectodomain |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >6RTY_B|Chain B|Llama-derived nanobody NB64|Lama glama (9844) QVQLQESGGGLVQPGGSLRLSCAASGSGNSINVMGWYRQAPGKPRELVAEITSSGTTNYADSVKGRFSISRDNAKNTVPLQMNSLKPEDTAIYYCSAVLVRFGGLRRSYWGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: A
Mutation: NULL
| >6RTY_A|Chain A|Protein patched homolog 1|Homo sapiens (9606) ETGELNYTRQKIGEEAMFNPQLMIQTPKEEGANVLTTEALLQHLDSALQASRVHVYMYNRQWKLEHLCYKSGELITETGYMDQIIEYLYPCLIITPLDCFWEGAKLQSGTAYLLGKPPLRWTNFDPLEFLEELKKINYQVDSWEEMLNKAEVGHGYMDRPCLNPADPDCPATAPNKNSTKPLDMALVLNGGCHGLSRKYMHWQEELIVGGTVKNSTGKLVSAHALQTMFQLMTPKQMYEHFKGYEYVSHINWNEDKAAAILEAWQRTYVEVVHQSVAQNSTQKVLSFTGTKHHHHHH |
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 SER30 ASN32 ARG45 LEU99 VAL100 ARG101 PHE102 GLY103 GLY104 LEU105 ARG106 ARG107 SER108 TYR109 TRP110 A: GLU149 GLU150 GLU200 HIS201 CYS203 TYR204 LYS205 SER206 GLY207 GLU208 LEU209 ILE210 THR211 GLY214 ASP217 GLU221 TYR222 TYR224 MET367 GLN371 GLU374 HIS375 LYS377 GLY378 TYR379 |
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)
