Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2640 |
| PDBID: | 6ORP |
| Chains: | DE_B |
| Organism: | Human immunodeficiency virus 1, Macaca mulatta |
| Method: | EM |
| Resolution (Å): | 4.40 |
| Reference: | 10.1038/s41586-019-1250-z |
| Antibody | |
| Antibody: | Ab897NHP 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: D
Mutation: NULL
| >6ORP_D|Chain D, H, J|Ab897NHP antibody Fab heavy chain|Macaca mulatta (9544) MGWSCIILFLVATATGVHSEVQLLESGPGLVKPSETLSLTCAVSGGSISSSNWWSWIRQPPGKGLEWIGNIGGSSGNTYYNPSLKSRVTISKDTSKNQFSLKLNSVTAADTAVYYCARDSSGWPWDNRFDVWGAGVLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTXVDKRVEPKSCDKTHHHHHH |
Light Chain: E
Mutation: NULL
| >6ORP_E|Chain E, K, L|Ab897NHP antibody Fab light chain|Macaca mulatta (9544) MGWSCIILFLVATATGSWAQSALTQPPSVSGAPGQRVTLSCTGSTSNIGGFYVQWYQQLPGTAPKLLIYENNKRPSGLSDRFSGSQSGTSASLTITGLQSEDEADYYCQSYDNSLSAQVFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: B
Mutation: NULL
| >6ORP_B|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)
| D: SER54 SER55 GLY56 ASN57 TYR59 E: ILE28 GLY29 GLY30 PHE31 TYR32 SER67 GLY68 TYR91 ASN93 B: THR132 ASN133 TYR134 ALA135 PRO136 ASN137 LEU138 LEU139 GLN156 SER158 GLN170 LYS171 VAL172 TYR173 LEU175 ASN188 LYS305 TYR319 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)
