Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2807 |
| PDBID: | 6RVC |
| Chains: | D_A |
| Organism: | Homo sapiens, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.20 |
| Reference: | 10.1038/s41589-019-0370-y |
| Antibody | |
| Antibody: | NB75 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Patched-1 ectodomain 2 (PTCH1-ECD2) |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6RVC_D|Chain D, E, F|Nanobody NB75|Lama glama (9844) QVQLQESGGGLVQAGDSLTLSCAASGRTFSSYTMGWFRQAPGKERDFIAGITSTGSSTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTADYYCARKVAGGSYYQKDKYDYWGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: A
Mutation: NULL
| >6RVC_A|Chain A, B, C|Protein patched homolog 1|Homo sapiens (9606) ETGHHHHHHRDGLDLTDIVPRETREYDFIAAQFKYFSFYNMYIVTQKADYPNIQHLLYDLHRSFSNVKYVMLEENKQLPKMWLHYFRDWLQGLQDAFDSDWETGKIMPNNYKNGSDDGVLAYKLLVQTGSRDKPIDISQLTKQRLVDADGIINPSAFYIYLTAWVSNDPVAYAASQANIRPHRPEWVHDKADYMPETRLRIPAAEPIEYAQFPFYLNGLRDTSDFVEAIEKVRTICSNYTSLGLSSYPNGYPFLFWEQYIG |
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: SER31 THR33 THR52 SER53 THR54 SER56 SER57 THR58 TYR59 ASP62 LYS65 LYS99 GLY102 GLY103 SER104 TYR105 TYR106 GLN107 A: LYS842 HIS846 TYR847 ASP850 TRP851 GLN853 GLY854 LEU855 ASP857 ALA858 ASP860 SER861 ASP862 GLU864 THR865 LYS867 ASN875 SER877 ASP879 ARG906 ASP930 PRO931 VAL932 |
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)
