Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2357 |
| PDBID: | 6J14 |
| Chains: | AB_G |
| Organism: | Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 1.40 |
| Reference: | 10.1016/j.isci.2019.03.017 |
| Antibody | |
| Antibody: | GY-14 Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Programmed cell death protein 1 (PD-1) |
| Antigen mutation: | No |
| Durg Target: | Q15116 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >6J14_A|Chain A|GY-14 heavy chain V fragment|Mus musculus (10090) QVQLQQSGAELVRPGASVKLSCKALGDTFTDYEIHWVKQTPVHGLEWIGVIHPGSGGTVYNQKFKGKATLTADKYSSTAYMELSSLTSEDSAVYYCTREGMNTDWYFDVWGAGTTVTVSS |
Light Chain: B
Mutation: NULL
| >6J14_B|Chain B|GY-14 light chain V fragment|Mus musculus (10090) DILMTQDELSLPVSLGDQASISCRSSQTIVHTNGNTYLEWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTYFTLKISRLEAEDLGVYYCFQGSHVPYTFGGGTKLEMK |
Antigen
Chain: G
Mutation: NULL
| >6J14_G|Chain C[auth G]|Programmed cell death protein 1|Homo sapiens (9606) NPPTFSPALLVVTEGDNATFTCSFSNTSESFVLNWYRMSPSNQTDKLAAFPEDRSQPGQDCRFRVTQLPNGRDFHMSVVRARRNDSGTYLCGAISLAPKAQIKESLRAELRVTER |
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: ASP31 GLU33 VAL50 HIS52 GLY54 SER55 GLY57 THR58 VAL59 LYS74 GLU99 GLY100 MET101 ASN102 THR103 TRP105 TYR106 B: HIS31 THR32 ASN33 TYR37 GLY96 SER97 HIS98 VAL99 TYR101 G: VAL64 ASN66 LYS78 ILE126 LEU128 ALA129 PRO130 LYS131 ALA132 GLN133 ILE134 |
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)
