Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1508 |
| PDBID: | 5KEM |
| Chains: | DE_A |
| Organism: | Homo sapiens, Ebola virus - Mayinga, Zaire, 1976 |
| Method: | EM |
| Resolution (Å): | 5.50 |
| Reference: | 10.1038/nmicrobiol.2016.128 |
| Antibody | |
| Antibody: | c13C6 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ebola secreted glycoprotein |
| Antigen mutation: | No |
| Durg Target: | Q05320; Q05320; |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >5KEM_D|Chain C[auth D], H[auth I]|c13C6 variable Fab domain heavy chain|Homo sapiens (9606) DVKLLESGGGLVQPGGSLKLSCAASGFSLSTSGVGVGWFRQPSGKGLEWLALIWWDDDKYYNPSLKSQLSISKDFSRNQVFLKISNVDIADTATYYCARRDPFGYDNAMGYWGQGTSVTVS |
Light Chain: E
Mutation: NULL
| >5KEM_E|Chain D[auth E], I[auth J]|c13C6 variable Fab domain light chain|Homo sapiens (9606) DIVMTQSPLSLSTSVGDRVSLTCKASQNVGTAVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFCQQYSSYPLTFGAGTKLELR |
Antigen
Chain: A
Mutation: NULL
| >5KEM_A|Chain E[auth A], J[auth F]|Ebola secreted glycoprotein|Zaire ebolavirus (128952) CRDKLSSTNQLRSVGLNLEGNGVATDVPSATKRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPCAGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSHPLREPVNATEDPSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYTSGKRSNTTGKLIWKVNPEIDTT |
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)
| D: SER30 THR31 SER32 VAL34 TRP52 TRP53 ASP54 ASP55 LYS57 ASP72 PHE73 SER74 PRO97 GLY99 E: THR31 ALA32 TYR91 SER92 TYR94 A: PRO116 ASP117 THR144 GLN221 THR223 GLU231 LEU233 GLU235 ASN238 THR240 ARG266 ASN268 THR269 THR270 GLY271 LYS272 LEU273 ILE274 TRP275 |
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)
