Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2898 |
| PDBID: | 6U59 |
| Chains: | FE_C |
| Organism: | Human immunodeficiency virus 1, Oryctolagus cuniculus |
| Method: | EM |
| Resolution (Å): | 3.86 |
| Reference: | 10.1128/JVI.01861-19 |
| Antibody | |
| Antibody: | 13B 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: F
Mutation: NULL
| >6U59_F|Chain D[auth F], H, L[auth K]|rabbit antibody 13B Fragment antigen binding heavy chain|Oryctolagus cuniculus (9986) LEESGGGLVQPEGSLTLTCKASGFDFSDYHVQWVRQSPGKGLEFIGGIAYTGNIYYASWAKGRFTISKTSSTTVTLQMTTLTAADTATYFCARAYGYASAPYAQYFNLWGPGTLVTVSS |
Light Chain: E
Mutation: NULL
| >6U59_E|Chain C[auth E], G[auth J], K[auth L]|rabbit antibody 13B Fragment antigen binding light chain|Oryctolagus cuniculus (9986) DIVMTQTPASVSEPVGGTVTINCQASQSRGNNYLSWYQQKPGQSPSLLIYRTSTLASGVPSRFKGSGSGTQFTLTISDLECADAATYYCLYGYYSSRNPDFAFGGGTEVVVK |
Antigen
Chain: C
Mutation: NULL
| >6U59_C|Chain A, E[auth C], I[auth G]|SOSIP.664 gp120,SOSIP.664 gp120|Human immunodeficiency virus 1 (11676) MDAMKRGLCCVLLLCGAVFVSPSQEIHARFRRGARAAKKWVTVYYGVPVWKEATTTLFCASDAKAYDTEVHNVWATHACVPTDPNPQEIVLGNVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLNCNNVNTNNTNNSTNATISDWEKMETGEMKNCSFNVTTSIRDKIKKEYALFYKLDVVPLENKNNINNTNITNYRLINCNTSVITQACPKVSFEPIPIHYCAPAGFAILKCNSKTFNGSGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENITDNAKTIIVQLNEAVEINCTRPNNNTRKSIHIGPGRAFYATGDIIGNIRQAHCNISKARWNETLGQIVAKLEEQFPNKTIIFNHSSGGDPEIVTHSFNCGGEFFYCNTTPLFNSTWNNTRTDDYPTGGEQNITLQCRIKQIINMWQGVGKAMYAPPIRGQIRCSSNITGLLLTRDGGRDQNGTETFRPGGGNMRDNWRSELYKYKVVKIEPLGIAPTACKRRVVQRRRRRR |
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: ARG28 GLY29 ASN31 TYR32 TYR49 ARG50 TYR92 SER94 F: ASP28 SER30 ASP31 TYR53 TYR96 GLY97 TYR98 ALA99 C: ASN88 SER230 LYS231 THR232 ASN234 THR240 ASN241 GLU268 GLU269 ILE270 VAL271 ILE272 ASN289 GLU290 GLU340 GLN344 ALA347 LYS348 GLU350 GLU351 GLN352 PRO354 ASN355 THR398 |
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)
