Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1988 |
| PDBID: | 5YWO |
| Chains: | RQ_A |
| Organism: | Japanese encephalitis virus, Mus musculus |
| Method: | EM |
| Resolution (Å): | 4.70 |
| Reference: | 10.1038/s41564-017-0099-x |
| Antibody | |
| Antibody: | 2F2 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Japanese encephalitis virus E protein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: R
Mutation: NULL
| >5YWO_R|Chain H[auth N], J[auth R]|2F2 heavy chain|Mus musculus (10090) QVQLMESGPELKKPGETVKISCTTSGYTFTDYAMHWVKQAPGKGLEWMGWINTATGEPTYAYDFKERFGFSLETSASTAFLQISNLKIEDTATYFCASDGRYWYFGVWGAGTSVTVSSPKTTPPSVYPLAPVCGDTTGSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR |
Light Chain: Q
Mutation: NULL
| >5YWO_Q|Chain G[auth M], I[auth Q]|2F2 light chain|Mus musculus (10090) DIVLTQSPASLAVSLGQRATISCRASQSVSTSYMHWYQQKPGQPPRLLIYLVSNLESGVPSRFSGSGSGTDFTLNIHPVEAEDEATYYCQHIRELTRSEAGPSWLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: A
Mutation: NULL
| >5YWO_A|Chain A, C, E|JEV E protein|Japanese encephalitis virus (11072) FNCLGMGNRDFIEGASGATWVDLVLEGDSCLTIMANDKPTLDVRMINIEASQLAEVRSYCYHASVTDISTVARCPMTGEAHNEKRADSSYVCKQGFTDRGWGNGCGLFGKGSIDTCAKFSCTSKAIGRTIQPENIKYEVGIFVHGTTTSENHGNYSAQVGASQAAKFTVTPNAPSITLKLGDYGEVTLDCEPRSGLNTEAFYVMTVGSKSFLVHREWFHDLALPWTPPSSTAWRNRELLMEFEEAHATKQSVVALGSQEGGLHQALAGAIVVEYSSSVKLTSGHLKCRLKMDKLALKGTTYGMCTGKFSFAKNPADTGHGTVVIELSYSGSDGPCKIPIVSVASLNDMTPVGRLVTVNPFVATSSANSKVLVEMEPPFGDSYIVVGRGDKQINHHWHKAGSTLGKAFLTTLKGAQRLAALGDTAWDFGSIGGVFNSIGKAVHQVFGGAFRTLFGGMSWITQGLMGALLLWMGVNARDRSIALAFLATGGVLLFLATNVHA |
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)
| Q: GLN27 SER28 VAL29 THR31 SER32 TYR33 TYR50 LEU51 GLU56 ILE92 ARG93 GLU94 LEU95 THR96 ARG97 R: TYR27 THR28 THR30 ASP31 TYR32 ALA33 TRP50 ASN52 THR53 ALA54 THR55 ASP99 GLY100 ARG101 TYR102 TRP103 PHE105 GLY106 A: GLU49 ALA50 SER51 GLN52 LEU53 ALA54 GLU55 TYR61 HIS62 SER120 CYS121 THR122 SER123 LYS124 ILE126 ARG128 GLN131 GLU133 ASN134 LYS136 THR170 ASN172 VAL203 THR205 GLY207 SER208 SER210 PRO228 SER229 SER230 TYR274 SER275 SER276 SER277 VAL278 |
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)
