Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2638 |
| PDBID: | 6ORO |
| Chains: | JK_I |
| Organism: | Human immunodeficiency virus 1, Macaca mulatta |
| Method: | EM |
| Resolution (Å): | 3.90 |
| Reference: | 10.1038/s41586-019-1250-z |
| Antibody | |
| Antibody: | Ab874NHP Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIP-based immunogen RC1 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: J
Mutation: NULL
| >6ORO_J|Chain D, H, J|Ab874NHP antibody Fab heavy chain|Macaca mulatta (9544) MGWSCIILFLVATATGVHSEVQLVETGGGLVQPGGSLKLSCAASGFTFSSYGMNWVRQAPGKGLEWVSGINSGGGTKYYADSVKGRFTISRDNSKNTLSLQMNSLRAEDTAVYYCAKSPWGQSTSFEYFEFWGQGALVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTXVDKRVEPKSCDKTHHHHHH |
Light Chain: K
Mutation: NULL
| >6ORO_K|Chain E, K, L|Ab874NHP antibody Fab light chain|Macaca mulatta (9544) MGWSCIILFLVATATGSNSQTVVTQPRSVSVSQGQTARITCGGDNIGSEAVQWYQQKPAQAPVLVIYDDSERPSGIPDRFSGSKSGNTATLTISGVEAGDEADYYCQVWDSSSDHPLFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: I
Mutation: NULL
| >6ORO_I|Chain B, G, I|RC1 variant of HIV-1 Env glycoprotein gp120|Human immunodeficiency virus 1 (11676) AENLWVTVYYGVPVWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLQCTNYAPNLLSNMRGELKQCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVIIRSENITNNAKNILVQLNTPVQINCTRPNNNTVKSIRIGPGQAFYYFGDIIGDIRMAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFAQSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSIVLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRVVGRRRRRR |
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)
| J: SER30 SER31 SER52 GLY53 GLY55 THR56 TYR58 TRP97 GLY98 GLN99 K: ASN27 GLY29 SER30 TYR49 ASP50 SER52 GLU53 HIS95 I: THR132 ASN133 TYR134 ALA135 PRO136 ASN137 LEU138 LEU139 GLN156 CYS157 SER158 LYS171 TYR173 SER187 ASN188 ASP321 ILE322 ILE323 GLY324 ASP325 ILE326 |
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)
