Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5681 |
| PDBID: | 7YMS |
| Chains: | FE_A |
| Organism: | Coxsackievirus A16 |
| Method: | EM |
| Resolution (Å): | 2.90 |
| Reference: | 10.1038/s41467-022-35575-w |
| Antibody | |
| Antibody: | 9B5 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Coxsackievirus A16 (CVA16) viral particles capsid protein VP1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >7YMS_F|Chain E[auth F]|The heavy chain of fab 9B5|Mus musculus (10090) EVQLQQSGPELVKPGASVKMSCKTSGYTFTENTMHWVRQSHGKSLEWIGGIYPKNDDTKYNQKFKGKATLTVDKSSSTACMELRSLTSEDSAVYYCARGDYENYFYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSGSLSSSVHTFPALLQSGLYTMSSSVTVPSSTWPSQTVTCSVAHPASSTTVDKKL |
Light Chain: E
Mutation: NULL
| >7YMS_E|Chain F[auth E]|The light chain of fab 9B5|Mus musculus (10090) DIQMTQSPASLSVSVGETVTITCRASENIYSNLAWYQQKQGKSPQLLVYAATNLADGVPSRFSGSGSGTQYSLKINSLQSEDFGTYYCQQFWDTPFTFGSGTKLAIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: A
Mutation: NULL
| >7YMS_A|Chain A|Capsid protein VP1|Coxsackievirus A16 (31704) GDPIADMIDQTVNNQVNRSLTALQVLPTAANTEASSHRLGTGVVPALQAAETGASSNASDKNLIETRCVLNHHSTQETAIGNFFSRAGLVSIITMPTMGTQNTDGYANWDIDLMGYAQLRRKCELFTYMRFDAEFTFVVAKPNGELVPQLLQYMYVPPGAPKPTSRDSFAWQTATNPSVFVKMTDPPAQVSVPFMSPASAYQWFYDGYPTFGEHLQANDLDYGQCPNNMMGTFSIRTVGTKKSPHSITLRVYMRIKHVRAWIPRPLRNQPYLFKTNPNYKGNDIKCTSTSRDKITTL |
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)
| F: TYR52 ASP57 LYS59 GLU102 ASN103 TYR104 PHE105 E: GLU27 ASN28 TYR30 TRP92 ASP93 THR94 A: THR97 MET98 GLY99 THR100 GLN101 THR103 ASP104 ARG166 LYS241 LYS242 SER243 PRO244 |
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)
