Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5944 |
| PDBID: | 8D0Y |
| Chains: | HL_G |
| Organism: | Macaca mulatta, Human immunodeficiency virus 1 |
| Method: | XRD |
| Resolution (Å): | 4.70 |
| Reference: | Not available or To be published |
| Antibody | |
| Antibody: | PGT124 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIPv8 envelope glycoprotein - gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >8D0Y_H|Chain C[auth H]|PGT124 Fab Heavy Chain|Macaca mulatta (9544) QVQLQESGPGRVKPSETLSLTCAVSDDSFGSSYFYWSWIRQAPGKGLEWIGYIAYSGGVRYNPSLSSRVTISRNIHERQFYLRLTSMTAADTAVYYCARHCEDDYGYYSAAQSYGLDSWGQGIAVTVSPSTKGPSVFPLAPTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPK |
Light Chain: L
Mutation: NULL
| >8D0Y_L|Chain D[auth L]|PGT124 Fab Light Chain|Macaca mulatta (9544) DIQMTQSPSSLSASVGDRVTITCRTSENVNNCLNWYQQKPGKAPKLLIYRTSTLQRGVPSRFSGTGSGTDYTLTISSLQSEDFGTYYCQHYYGTPLTFGGGTMVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGE |
Antigen
Chain: G
Mutation: NULL
| >8D0Y_G|Chain E[auth G]|BG505SOSIPv8 gp120|Human immunodeficiency virus 1 (11676) ENLWVTVYYGVPVWKDAETTLFCASDAKAYETKKHNVWATHCCVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPNVSTVQCTHGIKPVVSTQLLLNGSLAEEEVIIRSENITNNAKNILVQLNTPVQINCTRPNNNTVKSIRIGPGQWFYYTGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISGSNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRVVG |
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)
| H: ASP27 PHE29 GLY30 SER32 TYR33 TYR50 ILE51 TYR53 SER54 GLY55 GLY56 VAL57 ARG58 TYR59 SER64 ILE69 SER70 ARG71 ILE73 HIS74 GLU75 ARG76 GLU97 ASP99 L: ASP1 ILE2 GLU27 ASN30 TYR92 GLY93 THR94 PRO95 G: GLU49 TRP96 LYS97 ASN99 VAL101 GLU102 GLN103 GLU106 ARG192 ILE194 ASN195 ASN197 THR198 SER199 GLU275 ASN276 ILE277 ASN279 ASN280 ALA281 LYS282 ASN283 SER365 GLY366 GLY367 ASP368 GLU370 VAL371 ASN425 GLN428 ARG429 ILE430 ALA433 THR455 ARG456 ASP457 GLY458 GLY459 SER460 THR461 ARG469 GLY471 GLY472 GLY473 ASP474 ARG476 ASP477 ARG480 |
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)
