Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3436 |
| PDBID: | 7C88 |
| Chains: | AB_C |
| Organism: | Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.00 |
| Reference: | 10.1038/s41392-020-00254-z |
| Antibody | |
| Antibody: | JS003 Fab |
| 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
Heavy Chain: A
Mutation: NULL
| >7C88_A|Chain A, D[auth H]|JS003 Heavy chain|Mus musculus (10090) QGQLQESGPSLVKPSQTLSLTCTVSGDSITRGYWNWIRKHPGKGLEYIGYISYTGSTYSNLSLKSRVTISRDTSKNQYYLKLSSVTAADTAVYYCATSTGWLDPVDYWGQGTLVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVESKYGPPCPPCP |
Light Chain: B
Mutation: NULL
| >7C88_B|Chain B, E[auth L]|JS003 Light chain|Mus musculus (10090) DIVMTQSPDSLAVSLGERATINCKASQNVDTSVAWFQQKPGQPPKALIYSASFRYSGVPDRFSGSGSGTDFTLTISSLQAEDVAVYFCQQYYGYPFTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >7C88_C|Chain C, F[auth M]|Programmed cell death 1 ligand 1|Homo sapiens (9606) MRIFAVFIFMTYWHLLNAFTVTVPKDLYVVEYGSNMTIECKFPVEKQLDLAALIVYWEMEDKNIIQFVHGEEDLKVQHSSYRQRARLLKDQLSLGNAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNK |
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)
| A: TYR52 TYR69 SER71 TYR72 THR73 GLY74 SER75 THR76 TYR77 SER78 LEU80 LYS83 TRP120 LEU121 B: ILE24 GLN49 TYR114 GLY115 TYR116 PRO117 C: PHE19 ALA51 ILE54 TYR56 GLU58 GLU60 ASP61 ASN63 GLN66 VAL68 HIS69 GLU71 ASP73 VAL76 ARG113 MET115 ILE116 SER117 GLY119 GLY120 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)
