Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4762 |
| PDBID: | 7RK2 |
| Chains: | D_A |
| Organism: | Human astrovirus 8, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 2.65 |
| Reference: | 10.1128/JVI.01415-21 |
| Antibody | |
| Antibody: | 2D9 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | human astrovirus serotype 8 capsid spike VP25 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >7RK2_D|Chain C, D|scFv 2D9|Mus musculus (10090) RSQVQLKQSGPGLVQPSQSLSITCTVSGFSLTSYGVHWVRQSPGKGLEWLGVIWSGGSTDYNAAFISRLSISKDNSKSQVFFKMNSLQANDTAIYYCARNSLLDAMDYWGQGTSVTVSSGGSGGGGSGGGGSGGGGSSIVMTQTPKFLLVSAGDRVTITCKASQSVSNAVAWYQQKPGQSPKLLIYYASNRYTGVPDRFTGSGYGTDFTFTISTVQAEDLAVYFCQQDYSSPLTFGAGTKLELKRASLVPR |
Antigen
Chain: A
Mutation: NULL
| >7RK2_A|Chain A, B|Capsid protein VP25|Human astrovirus-8 (43358) MGGEQFRVLLTVGPPMAPNTANSQNWVNKTIVPPENQYTVKIGIDLEHYTTMQGFTPVESVSWYTADFQPSDEPSPIPGLYARVNNTKKADVYGVQQFKSSHTNNRHQITSVFLVRVTTSFQVINYTSYFIRGAESGSNVSNLKIRDQTYHTPLQFTQGKWYLLTSTVMHDGPTSSGWVWMNQELTNNIAYRVDPGMMYLITPPPAASQLYFELHTVLPQAAAELALVPR |
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: GLY33 TRP52 SER53 GLY54 SER56 ASP58 ASN98 LEU100 LEU101 ASP102 SER165 ASN166 ALA167 TYR184 TYR185 SER187 ASN188 THR191 SER200 GLY201 TYR202 ASP226 TYR227 SER228 SER229 LEU231 A: HIS528 THR529 ASN530 ASN531 ARG532 GLU561 SER564 ASN565 VAL566 ASN568 LYS570 MET595 HIS596 ASP597 GLY598 PRO599 MET607 GLN609 THR612 ASN614 ILE615 ALA616 |
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)
