Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2600 |
| PDBID: | 6OKP |
| Chains: | MN_D |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 3.28 |
| Reference: | 10.1016/j.immuni.2019.04.014 |
| Antibody | |
| Antibody: | SF12 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 B41 SOSIP.664 gp120 |
| Antigen mutation: | No |
| Durg Target: | P00750 |
Sequence information
Antibody
Heavy Chain: M
Mutation: NULL
| >6OKP_M|Chain I[auth M], K[auth O], M[auth Q]|SF12 Heavy Chain,SF12 Heavy Chain|Homo sapiens (9606) QVQLQESGPGLVKPSETLSVTCRVSGGSLDLYYWSWIRQPPGKGLQWIGFVYFDGSYGDYDPSLRSRVTISADMSKNQISLRLKSVTPADTAVYYCARLGPGGIFDRWTGHYGDKWLDPWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHHHHH |
Light Chain: N
Mutation: NULL
| >6OKP_N|Chain J[auth N], L[auth P], N[auth R]|SF12 Light Chain,SF12 Light Chain|Homo sapiens (9606) QIDLTQSPRTLSLSAGERATLLCRASQSVSNVALAWYQHKPGQAPRLLLHEASTRATGIPDRFIGSGSGRDFTLTITSLEPEDFAVYYCQLSGRRLGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: D
Mutation: NULL
| >6OKP_D|Chain D, E, F|Envelope glycoprotein gp120|Human immunodeficiency virus 1 (11676) MDAMKRGLCCVLLLCGAVFVSPSQEIHARFRRGARAAKKWVTVYYGVPVWKEATTTLFCASDAKAYDTEVHNVWATHACVPTDPNPQEIVLGNVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLNCNNVNTNNTNNSTNATISDWEKMETGEMKNCSFNVTTSIRDKIKKEYALFYKLDVVPLENKNNINNTNITNYRLINCNTSVITQACPKVSFEPIPIHYCAPAGFAILKCNSKTFNGSGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENITDNAKTIIVQLNEAVEINCTRPNNNTRKSIHIGPGRAFYATGDIIGNIRQAHCNISKARWNETLGQIVAKLEEQFPNKTIIFNHSSGGDPEIVTHSFNCGGEFFYCNTTPLFNSTWNNTRTDDYPTGGEQNITLQCRIKQIINMWQGVGKAMYAPPIRGQIRCSSNITGLLLTRDGGRDQNGTETFRPGGGNMRDNWRSELYKYKVVKIEPLGIAPTACKRRV |
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)
| M: ASP30 LEU31 PHE52 ASP53 MET73 SER74 D: SER56 ASP57 LYS59 ALA60 ASP62 ILE213 PRO214 ARG252 GLU293 ASN295 GLN442 ARG444 SER446 SER447 ASN448 |
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)
