Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2528 |
| PDBID: | 6N8D |
| Chains: | FE_C |
| Organism: | Norovirus Hu/GII.4/Farmington Hills/2004/USA, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.10 |
| Reference: | 10.1016/j.immuni.2019.05.007 |
| Antibody | |
| Antibody: | A1431 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Norovirus major capsid protein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >6N8D_F|Chain C[auth D], F|A1431 Fab heavy chain|Homo sapiens (9606) QVQLVQSGGGLVQPGGSLRLSCAASGFAFSNHGMHWVRQAPGKGLEWLSYISGSTGAIHYANSVKGRFTISRDNARNSLDLQMNSLGDEDTAVYYCARDGPRPDGTGYAGPSNDYWGQGTLVSVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKGLEVLFQ |
Light Chain: E
Mutation: NULL
| >6N8D_E|Chain B, E|A1431 Fab light chain|Homo sapiens (9606) EIVLTQSPASLSLSPGERATLSCKASRSISIYLAWYQQKPGQAPRLLIYDASYRAIGIPARFSGSGSGTDFTLTISNLEPEDFAVYYCQHRSSWPALTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >6N8D_C|Chain A, D[auth C]|Major capsid protein|Norovirus Hu/GII.4/Farmington Hills/2004/USA (1182143) GPSKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTTQLSPVNICTFRGDVTHIAGTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGMLTQTTRGDGSTRGHKATVSTGDVHFTPKLGSIQFNTDTNNDFETGQNTKFTPVGVVQDGNGAHQNEPQQWVLPSYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDCLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLVIPPNGYFRFDSWVNQFYTLAPM |
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)
| E: SER28 ILE29 SER30 ILE31 TYR32 TYR49 ILE56 ARG91 SER92 SER93 TRP94 F: GLN1 VAL2 ASN31 HIS32 TYR50 THR54 ALA56 PRO97 ARG98 PRO99 C: PHE250 PRO253 SER254 GLY255 ALA256 PHE257 VAL258 ASN393 GLY394 ALA395 HIS396 GLN397 ASN398 PRO400 GLN401 GLN402 TRP403 VAL404 ARG435 TYR444 ASN446 ASN448 HIS501 THR502 GLY503 GLN504 HIS505 ASP506 |
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)
