Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 647 |
| PDBID: | 3S37 |
| Chains: | HL_X |
| Organism: | Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.70 |
| Reference: | 10.1016/j.str.2011.01.019 |
| Antibody | |
| Antibody: | 1121B Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | Ramucirumab(Approved) |
| Antigen | |
| Antigen: | Vascular endothelial growth factor receptor 2 |
| Antigen mutation: | No |
| Durg Target: | P35968 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >3S37_H|Chain B[auth H]|1121B Fab heavy chain|Mus musculus (10090) EVQLVQSGGGLVKPGGSLRLSCAASGFTFSSYSMNWVRQAPGKGLEWVSSISSSSSYIYYADSVKGRFTISRDNAKNSLYLQMNSLRAEDTAVYYCARVTDAFDIWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCAA |
Light Chain: L
Mutation: NULL
| >3S37_L|Chain A[auth L]|1121B Fab light chain|Mus musculus (10090) DIQMTQSPSSVSASIGDRVTITCRASQGIDNWLGWYQQKPGKAPKLLIYDASNLDTGVPSRFSGSGSGTYFTLTISSLQAEDFAVYFCQQAKAFPPTFGGGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: X
Mutation: NULL
| >3S37_X|Chain C[auth X]|Vascular endothelial growth factor receptor 2|Homo sapiens (9606) ADPGYRIYDVVLSPSHGIELSVGEKLVLNCTARTELNVGIDFNWEYPSSKHQHKKLVNRDLKTQSGSEMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPFVAFGSGMES |
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)
| L: ASP30 TRP32 ASP50 ALA91 LYS92 ALA93 PHE94 PRO96 H: THR28 SER30 SER31 TYR32 SER33 ASN35 TRP47 SER50 ILE51 SER52 SER53 SER54 SER56 TYR57 TYR59 ASN74 VAL99 THR100 ASP101 PHE103 X: GLY220 TYR221 ARG222 GLU251 GLY255 ILE256 ASP257 ASN259 GLU261 HIS269 PHE288 ALA308 SER310 SER311 GLY312 LEU313 MET314 THR315 LYS316 LYS317 |
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)
