Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1369 |
| PDBID: | 5G64 |
| Chains: | IM_B |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.71 |
| Reference: | 10.1074/jbc.M117.776476 |
| Antibody | |
| Antibody: | Omalizumab Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | IG EPSILON CHAIN C REGION |
| Antigen mutation: | No |
| Durg Target: | P01854 |
Sequence information
Antibody
Heavy Chain: I
Mutation: NULL
| >5G64_I|Chain C[auth H], D[auth I]|FAB FRAGMENT|HOMO SAPIENS (9606) EVQLVESGGGLVQPGGSLRLSCAVSGYSITSGYSWNWIRQAPGKGLEWVASITYDGSTNYNPSVKGRITISRDDSKNTFYLQMNSLRAEDTAVYYCARGSHYFGHWHFAVWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCHHHHHH |
Light Chain: M
Mutation: NULL
| >5G64_M|Chain E[auth L], F[auth M]|FAB FRAGMENT|HOMO SAPIENS (9606) DIQLTQSPSSLSASVGDRVTITCRASQSVDYDGDSYMNWYQQKPGKAPKLLIYAASYLESGVPSRFSGSGSGTDFTLTISRLRPEDFATYYCQQSHEDPYTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNAPQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: B
Mutation: NULL
| >5G64_B|Chain A, B|IG EPSILON CHAIN C REGION|HOMO SAPIENS (9606) DIVASRDFTPPTVKILQSSCDGGGHFPPTIQLLCLVSGYTPGTIQITWLEDGQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDRTYTCQVTYQGHTFEDSTKKCADSNPRGVSAYLSRPSPFDLFIRKSPTITCLVVDLAPSKGTVQLTWSRASGKPVNHSTRKEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMRSTTKTSGPRAAPEVYAFATPEWPGSRDKRTLACLIQNFMPEDISVQWLHNEVQLPDARHSTTQPRKTKGSGFFVFSRLEVTRAEWEQKDEFICRAVHEAASPSQTVQRAVSVNPGK |
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)
| Chain residues position delta_SASA
: residuesposition I: TYR27 SER31 GLY32 TYR33 TYR54 SER100 HIS101 TYR102 PHE103 TRP106 M: TYR31 ASP32 GLY33 ASP34 TYR36 TYR53 TYR57 GLY70 SER71 B: THR373 TRP374 SER375 ARG376 ALA377 SER378 GLY379 LYS380 PRO381 GLU412 GLY413 GLU414 GLN417 CYS418 ARG419 THR421 PRO426 ARG427 ALA428 LEU429 MET430 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
