Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1114 |
| PDBID: | 4YFL |
| Chains: | FI_E |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.39 |
| Reference: | 10.1016/j.cell.2015.05.007 |
| Antibody | |
| Antibody: | 1B2530 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 clade A/E 93TH057 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >4YFL_F|Chain B[auth F], E[auth H]|1B2530 heavy chain|Homo sapiens (9606) QVQLEQSGTAVRKPGASVTLSCQASGYNFVKYIIHWVRQKPGLGFEWVGMIDPYRGRPWSAHKFQGRLSLSRDTSMEILYMTLTSLKSDDTATYFCARAEAASDSHSRPIMFDHWGQGSLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKS |
Light Chain: I
Mutation: NULL
| >4YFL_I|Chain C[auth I], F[auth L]|1B2530 Light chain|Homo sapiens (9606) QSALTQPPSASGAPGQRVTISCSGGPSNVGGNYVYWYRQFPGTAPTLLILRDDQRPSGVPDRFSASKSGNSASLAISGLRPDDEGFYFCATYDSDGSIRLFGGGTALTVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPTEC |
Antigen
Chain: E
Mutation: NULL
| >4YFL_E|Chain A[auth E], D[auth G]|Envelope glycoprotein gp160,Envelope glycoprotein gp160,Envelope glycoprotein gp160|Human immunodeficiency virus 1 (11676) VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHHFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTSNETFRPGGGNIKDNWRSELYKYKVVQIE |
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)
| F: ILE33 TRP47 MET50 TYR53 ARG54 ARG56 PRO57 TRP58 ALA60 HIS61 GLN64 LEU67 LEU69 ARG71 THR73 ALA97 ALA98 SER99 I: SER93 ASP94 ILE95 LEU97 E: TRP96 LYS97 ASN99 GLU102 GLN105 GLU275 ASN276 THR278 ASN279 ASN280 ALA281 LYS282 PRO364 SER365 GLY366 GLY367 ASP368 ILE371 TRP427 GLN428 GLY429 THR455 ARG456 ASP457 GLY458 GLY459 ALA460 ASN461 ASN462 THR467 ARG469 PRO470 GLY471 GLY473 ASN474 ILE475 |
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)
