Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5968 |
| PDBID: | 8DEQ |
| Chains: | HL_F |
| Organism: | Venezuelan equine encephalitis virus, Macaca |
| Method: | EM |
| Resolution (Å): | 6.00 |
| Reference: | 10.1016/j.cell.2023.05.019 |
| Antibody | |
| Antibody: | SKV09 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Venezuelan equine encephalitis virus-like particle (VLP) spike glycoprotein E1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >8DEQ_H|Chain G[auth H]|SKV09 Fab Heavy Chain|Macaca (9539) QVQLQESGPGLVKPSETLSLTCTVSGGSISGYYWNWIRQSPGKGLEWIGNMYDSTGDTNYNPSLKSRVTLSIDTSKNQFSMKLNSVTAADTAVYFCASGSGDWFGYFYRWGQGVLVTVSS |
Light Chain: L
Mutation: NULL
| >8DEQ_L|Chain H[auth L]|SKV09 Fab Light Chain|Macaca (9539) DIQMTQSPSSLSASVGDTVTITCRASQSISSWLAWYQQKPGKAPNLLIYKASSLQTGVPSRFSGSGSETHFTLTISSLQSEDFATYYCQQYISRPWTFGQGTKVEIK |
Antigen
Chain: F
Mutation: NULL
| >8DEQ_F|Chain A, B, C, D, E, F|Spike glycoprotein E1|Venezuelan equine encephalitis virus (11036) YEHATTMPSQAGISYNTIVNRAGYAPLPISITPTKIKLIPTVNLEYVTCHYKTGMDSPAIKCCGSQECTPTYRPDEQCKVFTGVYPFMWGGAYCFCDTENTQVSKAYVMKSDDCLADHAEAYKAHTASVQAFLNITVGEHSIVTTVYVNGETPVNFNGVKITAGPLSTAWTPFDRKIVQYAGEIYNYDFPEYGAGQPGAFGDIQSRTVSSSDLYANTNLVLQRPKAGAIHVPYTQAPSGFEQWKKDKAPSLKFTAPFGCEIYTNPIRAENCAVGSIPLAFDIPDALFTRVSETPTLSAAECTLNECVYSSDFGGIATVKYSASKSGKCAVHVPSGTATLKEAAVELTEQGSATIHFSTANIHPEFRLQICTSYVTCKGDCHPPKDHIVTHPQYHAQTFTAAV |
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)
| H: GLY31 TYR32 TYR33 THR54 SER96 GLY97 ASP98 TRP99 L: SER28 ILE29 SER30 TRP32 TYR91 ILE92 SER93 ARG94 PRO95 TRP96 F: ALA298 LYS319 SER323 LYS324 SER325 GLY326 GLU345 THR347 GLU348 GLN349 GLY350 SER351 |
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)
