Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6795 |
| PDBID: | 4DVR |
| Chains: | HL_G |
| Organism: | Human immunodeficiency virus type 1 (isolate YU2), Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.50 |
| Reference: | 10.1371/journal.pone.0085940 |
| Antibody | |
| Antibody: | 48d Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 YU2 envelope glycoprotein gp120 |
| Antigen mutation: | No |
| Durg Target: | P35961; P35961; |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >4DVR_H|Chain C[auth H]|Fab 48d Heavy chain|Homo sapiens (9606) EVQLVQSGAEVKKPGATVKISCKASGYTFSDFYMYWVRQAPGKGLEWMGLIDPEDADTMYAEKFRGRVTITADTSTDTGYLELSSLRSEDTAVYYCAADPWELNAFNVWGQGTLVSVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP |
Light Chain: L
Mutation: NULL
| >4DVR_L|Chain B[auth L]|Fab 48d Light chain|Homo sapiens (9606) DIQMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFSLTINSLQPEDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKLYACEVTHQGLSSPVTKSFNRGE |
Antigen
Chain: G
Mutation: NULL
| >4DVR_G|Chain A[auth G]|Envelope glycoprotein gp120|Human immunodeficiency virus type 1 group M subtype B (isolate YU-2) (362651) EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTGGSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTRPNNGGSGSGGDIRQAHCNLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTGRNITLPCRIKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKIE |
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)
| L: ILE2 GLN27 ASP28 TRP32 ASN92 SER93 PHE94 PHE95 H: ASP31 PHE32 TYR33 LEU50 ASP52 GLU54 ASP55 ASP57 THR58 MET59 GLU62 ARG65 GLU102 ASN104 G: CYS119 VAL120 LEU122 VAL200 THR202 GLN203 ALA204 CYS205 LYS207 GLY324 ASP325 ILE326 ARG327 PRO369 ARG419 LYS421 GLN422 ILE423 LYS432 ALA433 MET434 TYR435 ALA436 PRO437 PRO438 |
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)
