Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5488 |
| PDBID: | 7WVM |
| Chains: | AB_E |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.40 |
| Reference: | 10.3389/fimmu.2022.826045 |
| Antibody | |
| Antibody: | Cemiplimab Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | Cemiplimab(Approved) |
| Antigen | |
| Antigen: | Programmed cell death protein 1 (PD-1) |
| Antigen mutation: | No |
| Durg Target: | Q15116 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >7WVM_A|Chain A, D[auth C]|Heavy Chain of Cemiplimab|Homo sapiens (9606) EVQLLESGGVLVQPGGSLRLSCAASGFTFSNFGMTWVRQAPGKGLEWVSGISGGGRDTYFADSVKGRFTISRDNSKNTLYLQMNSLKGEDTAVYYCVKWGNIYFDYWGQGTLVTVSS |
Light Chain: B
Mutation: NULL
| >7WVM_B|Chain B, E[auth D]|Light Chain of Cemiplimab|Homo sapiens (9606) DIQMTQSPSSLSASVGDSITITCRASLSINTFLNWYQQKPGKAPNLLIYAASSLHGGVPSRFSGSGSGTDFTLTIRTLQPEDFATYYCQQSSNTPFTFGPGTVVDFR |
Antigen
Chain: E
Mutation: NULL
| >7WVM_E|Chain C[auth E], F|Programmed cell death protein 1|Homo sapiens (9606) PWNPPTFSPALLVVTEGDNATFTCSFSNTSESFVLNWYRMSPSNQTDKLAAFPEDRSQPGQDCRFRVTQLPNGRDFHMSVVRARRNDSGTYLCGAISLAPKAQIKESLRAELRVTER |
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: VAL2 GLY26 PHE27 THR28 ASN31 PHE32 SER52 GLY54 ARG56 ASP57 TYR59 LYS98 TRP99 GLY100 ASN101 ILE102 TYR103 ASP105 B: THR31 PHE32 TYR49 HIS55 SER91 SER92 ASN93 THR94 PHE96 E: SER60 GLU61 SER62 PHE63 VAL64 ASN66 LYS78 ALA81 PHE82 PRO83 GLU84 ASP85 ARG86 SER87 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)
