Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 651 |
| PDBID: | 3SKJ |
| Chains: | IM_F |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.50 |
| Reference: | 10.1016/j.jmb.2011.08.018 |
| Antibody | |
| Antibody: | 1C1 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ephrin type-A receptor 2 |
| Antigen mutation: | No |
| Durg Target: | P29317 |
Sequence information
Antibody
Heavy Chain: I
Mutation: NULL
| >3SKJ_I|Chain B[auth H], D[auth I]|Antibody, heavy chain|Homo sapiens (9606) EVQLLESGGGLVQPGGSLRLSCAASGFTFSHYMMAWVRQAPGKGLEWVSRIGPSGGPTHYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAGYDSGYDYVAVAGPAEYFQHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSC |
Light Chain: M
Mutation: NULL
| >3SKJ_M|Chain A[auth L], C[auth M]|Antibody, light chain|Homo sapiens (9606) DIQMTQSPSSLSASVGDRVTITCRASQSISTWLAWYQQKPGKAPKLLIYKASNLHTGVPSRFSGSGSGTEFSLTISGLQPDDFATYYCQQYNSYSRTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: F
Mutation: NULL
| >3SKJ_F|Chain E, F|Ephrin type-A receptor 2|Homo sapiens (9606) APEHHHHHHDYDIPTTENLYFQGAMDAAQGKEVVLLDFAAAGGELGWLTHPYGKGWDLMQNIMNDMPIYMYSVCNVMSGDQDNWLRTNWVYRGEAERIFIELKFTVRDCNSFPGGASSCKETFNLYYAESDLDYGTNFQKRLFTKIDTIAPDEITVSSDFEARHVKLNVEERSVGPLTRKGFYLAFQDIGACVALLSVRVYYKKCP |
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)
| M: SER28 SER30 THR31 TRP32 LYS50 ASN53 ASN92 I: HIS31 MET33 ARG50 PRO52 TYR95 ASP96 SER97 GLY98 TYR99 F: ASP29 MET31 GLN32 ASN33 ILE34 MET35 MET42 SER44 CYS46 ASN47 VAL48 MET49 THR77 ARG79 SER83 PHE84 PRO85 SER129 PHE132 GLU133 ARG135 VAL137 CYS164 VAL165 ALA166 |
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)
