Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 786 |
| PDBID: | 4KRM |
| Chains: | J_I |
| Organism: | Homo sapiens, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.65 |
| Reference: | 10.1016/j.str.2013.05.008 |
| Antibody | |
| Antibody: | 7D12 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Epidermal growth factor receptor |
| Antigen mutation: | No |
| Durg Target: | Q504U8; P00533; |
Sequence information
Antibody
Chain: J
Mutation: NULL
| >4KRM_J|Chain B, D, F, H, J, L|Nanobody/VHH domain 7D12|Lama glama (9844) QVKLEESGGGSVQTGGSLRLTCAASGRTSRSYGMGWFRQAPGKEREFVSGISWRGDSTGYADSVKGRFTISRDNAKNTVDLQMNSLKPEDTAIYYCAAAAGSAWYGTLYEYDYWGQGTQVTVSSALEHHHHHH |
Antigen
Chain: I
Mutation: NULL
| >4KRM_I|Chain A, C, E, G, I, K|Epidermal growth factor receptor|Homo sapiens (9606) LEEKKVCNGIGIGEFKDSLSINATNIKHFKNCTSISGDLHILPVAFRGDSFTHTPPLDPQELDILKTVKEITGFLLIQAWPENRTDLHAFENLEIIRGRTKQHGQFSLAVVSLNITSLGLRSLKEISDGDVIISGNKNLCYANTINWKKLFGTSGQKTKIISNRGENSCKATGQVCHALCSPEGCWGPEPRDCVSCRNVSRGRECVDKHHHHHH |
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)
| J: GLN1 SER29 ARG30 SER31 TYR32 GLN39 GLU44 TRP53 ALA99 ALA100 GLY101 TYR105 LEU108 TYR109 GLU110 TYR111 ASP112 TYR113 TRP114 GLN116 I: GLY317 LYS322 ASP323 SER324 LEU325 HIS346 LEU348 PRO349 VAL350 ARG353 ASP355 PHE357 THR358 GLN384 ALA385 HIS409 SER418 LEU419 ASN420 GLY441 LYS443 SER468 |
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)
