Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7113 |
| PDBID: | 5GRJ |
| Chains: | H_A |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.21 |
| Reference: | 10.1038/cr.2016.102 |
| Antibody | |
| Antibody: | Avelumab scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Programmed cell death 1 ligand 1 (PD-L1) |
| Antigen mutation: | No |
| Durg Target: | Q9NZQ7 |
Sequence information
Antibody
Chain: H
Mutation: NULL
| >5GRJ_H|Chain A[auth H]|avelumab H chain|Homo sapiens (9606) EVQLLESGGGLVQPGGSLRLSCAASGFTFSSYIMMWVRQAPGKGLEWVSSIYPSGGITFYADTVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARIKLGTVTTVDYWGQGTLVTVSS |
Antigen
Chain: A
Mutation: NULL
| >5GRJ_A|Chain C[auth A]|Programmed cell death 1 ligand 1|Homo sapiens (9606) AFTVTVPKDLYVVEYGSNMTIECKFPVEKQLDLAALIVYWEMEDKNIIQFVHGEEDLKVQHSSYRQRARLLKDQLSLGNAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNKINQRILVVDPVTSEHELTCQAEGYPKAEVIWTSSDHQVLSGKTTTTNSKREEKLFNVTSTLRINTTTNEIFYCTFRRLDPEENHTAELVIPELPLAHPPNER |
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)
| H: PHE27 THR28 SER30 SER31 ILE33 TYR52 PRO53 SER54 GLY55 GLY56 ILE57 PHE59 LEU101 GLY102 THR103 VAL104 THR105 THR106 A: ILE54 TYR56 GLU58 GLU60 ASP61 LYS62 ASN63 GLN66 VAL68 HIS69 ASP73 LYS75 VAL76 HIS78 ARG113 MET115 ILE116 SER117 ALA121 ASP122 TYR123 |
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)
