Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4776 |
| PDBID: | 7RSN |
| Chains: | FK_G |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 3.49 |
| Reference: | 10.1128/JVI.01552-21 |
| Antibody | |
| Antibody: | PGV04 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 AMC018 SOSIP.v4.2 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >7RSN_F|Chain G[auth E], I[auth F], K[auth H]|PGV04 Fab heavy chain|Homo sapiens (9606) QVQLVQSGSGVKKPGASVRVSCWTSEDIFERTELIHWVRQAPGQGLEWIGWVKTVTGAVNFGSPDFRQRVSLTRDRDLFTAHMDIRGLTQGDTATYFCARQKFYTGGQGWYFDLWGRGTLIVVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD |
Light Chain: K
Mutation: NULL
| >7RSN_K|Chain H[auth J], J[auth K], L|PGV04 kappa chain|Homo sapiens (9606) EIVLTQSPGTLSLSPGETASLSCTAASYGHMTWYQKKPGQPPKLLIFATSKRASGIPDRFSGSQFGKQYTLTITRMEPEDFARYYCQQLEFFGQGTRLEIRRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: G
Mutation: NULL
| >7RSN_G|Chain A, C, E[auth G]|AMC018 gp120|Human immunodeficiency virus 1 (11676) AGNLWVTVYYGVPVWKEATTTLFCASDARAYETEARNVWATHACVPTDPNPQEVVLENVTENFNMWRNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLNCSDMGNETATNNTSSGGETVEKGEIKNCSFNITTNIRDKVQKVYATFYKLDIVPIDDKTNNNNTNYTNYRLISCNTSVLTQACPKISFEPIPIHYCAPAGFAILKCNNKTFNGKGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEVVIRSENFTDNAKTIIVQLNESVEINCTRPNNNTRRSISIGPGRWFYTTGEIIGNIRQAHCNISRAKWNNTLQQIVNKLREKFENKTIVFNQPSGGDPEIVMHSFNCGGEFFYCNTTQLFNSTWNDTGGSNNTEGNNTITLPCRIKQIINMWQEVGKAMYAPPIKGQIRCSSNITGLLLTRDGGKTTNNTEIFRPGGGDMRDNWRSELYKYKVVKIEPLGIAPTKCKRRVVQRRRRRR |
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: GLU33 LEU34 TRP47 TRP50 VAL52 THR53 GLY54 ALA55 VAL56 ASN57 PHE58 GLY59 SER60 PRO61 ARG64 THR70 ARG71 ARG73 ASP74 PHE76 PHE97 TYR98 THR99 K: GLU1 ILE2 VAL3 SER27 GLY31 LEU91 GLU96 PHE97 G: ARG97 THR198 LYS236 GLU275 ASN276 THR278 ASP279 ASN280 ALA281 LYS282 THR283 SER365 GLY366 ILE371 GLN428 GLU429 VAL430 THR455 ARG456 ASP457 GLY458 GLY459 LYS460 ILE467 ARG469 GLY471 GLY472 GLY473 ASP474 ARG476 |
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)
