Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7057 |
| PDBID: | 4Y8D |
| Chains: | D_B |
| Organism: | Homo sapiens, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.10 |
| Reference: | 10.1021/jm501759m |
| Antibody | |
| Antibody: | GAK_4 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Cyclin G associated kinase (GAK) |
| Antigen mutation: | No |
| Durg Target: | O14976 |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >4Y8D_D|Chain B[auth C], D|nanobody|Lama glama (9844) QVQLQESGGGSVQAGGSLRLSCGASEYTSRMGWFRQAPGAEREGVACIHRQSNLSYYSDSVRGRFTISQDNAKTTAFLLMSSLKPEDTAIYYCATTTDCAAFVERATAITAGQGTQVTVSSAAAYPYDVPDYGSHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >4Y8D_B|Chain A, C[auth B]|Cyclin-G-associated kinase|Homo sapiens (9606) SMPGSLGGASGRDQSDFVGQTVELGELRLRVRRVLAEGGFAFVYEAQDVGSGREYALKRLLSNEEEKNRAIIQEVCFMKKLSGHPNIVQFCSAASIGKEESDTGQAEFLLLTELCKGQLVEFLKKMESRGPLSCDTVLKIFYQTCRAVQHMHRQKPPIIHRDLKVENLLLSNQGTIKLCDFGSATTISHYPDYSWSAQRRALVEEEITRNTTPMYRTPEIIDLYSNFPIGEKQDIWALGCILYLLCFRQHPFEDGAKLRIVNGKYSIPPHDTQYTVFHSLIRAMLQVNPEERLSIAEVVHQLQEIAAARNVNPKSPITELLEQNGGYGSATLSRGPPPPV |
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: TYR27 SER29 ARG30 HIS49 GLN51 SER52 LEU54 SER55 TYR56 TYR57 ASP59 ARG62 THR97 ASP98 CYS99 ALA100 ALA101 VAL103 GLU104 THR107 B: ASN237 LYS243 SER290 LEU291 ARG293 ALA294 GLN297 GLU301 GLU302 ARG303 LEU304 SER305 ALA307 GLU308 HIS311 GLN312 GLU315 ALA318 |
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)
