Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6022 |
| PDBID: | 8DPL |
| Chains: | C_J |
| Organism: | Homo sapiens, Mus musculus, Ebola virus - Mayinga, Zaire, 1976 |
| Method: | EM |
| Resolution (Å): | 2.53 |
| Reference: | 10.1016/j.celrep.2023.113366 |
| Antibody | |
| Antibody: | 6D6 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ebola virus Mayinga/Zaire/1976 glycoprotein GP2 |
| Antigen mutation: | No |
| Durg Target: | Q05320 |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >8DPL_C|Chain C, F[auth H], I[auth O]|6D6 single-chain variable fragment|Mus musculus (10090) QVQLQQSGTELVKPGASVKLSCKASGYTFTSYWMHWVKQRPGQGLEWIGEINPRNGRTDFSEKFKSKATLTVDTSSSTAFIQLSSLTSEDSAVYYCARWGYYGSSDYWGQGTALTVSSGTGGSGGGGSGGGGSGGGASDIVVTQSHKFMSTSVGDRVSITCKASQDVSVAVAWYQQKTGQSPKLLIYSASYRITGVPDRFTGSGSGTDFTFTISSVQAEDMAVYYCQQHYSTPPWTFGGGTKL |
Antigen
Chain: J
Mutation: NULL
| >8DPL_J|Chain K[auth E], M[auth J], O[auth N]|Glycoprotein GP2|Ebola virus - Mayinga, Zaire, 1976 (128952) EAIVNAQPKCNPNLHYWTTQDEGAAIGLAWIPYFGPAAEGIYTEGLMHNQDGLICGLRQLANETTQALQLFLRATTELRTFSILNRKAIDFLLQRWGGTCHILGPDCCIEPHDWTKNITDKIDQIIHDFVDKTLPD |
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)
| C: TRP33 GLU50 ASN52 ASN55 ARG57 ASP59 TRP99 TYR101 TYR102 GLY103 SER168 VAL169 ALA170 SER188 TYR191 HIS229 TYR230 SER231 PRO233 TRP235 J: ASP522 GLY524 ALA525 ALA526 ILE527 GLY528 LEU529 ALA530 TRP531 ILE532 PHE535 GLY536 PRO537 |
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)
