Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 196 |
| PDBID: | 1YYL |
| Chains: | RQ_P |
| Organism: | Human immunodeficiency virus 1, Homo sapiens, synthetic construct |
| Method: | XRD |
| Resolution (Å): | 2.75 |
| Reference: | 10.1016/j.str.2005.03.006 |
| Antibody | |
| Antibody: | 17b Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 YU2 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: R
Mutation: NULL
| >1YYL_R|Chain C[auth H], G[auth R]|antibody 17b heavy chain|Homo sapiens (9606) EVQLVESGAEVKKPGSSVKVSCKASGDTFIRYSFTWVRQAPGQGLEWMGRIITILDVAHYAPHLQGRVTITADKSTSTVYLELRNLRSDDTAVYFCAGVYEGEADEGEYDNNGFLKHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK |
Light Chain: Q
Mutation: NULL
| >1YYL_Q|Chain B[auth L], F[auth Q]|antibody 17b light chain|Homo sapiens (9606) DIVMTQSPATLSVSPGERATLSCRASESVSSDLAWYQQKPGQAPRLLIYGASTRATGVPARFSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRG |
Antigen
Chain: P
Mutation: NULL
| >1YYL_P|Chain A[auth G], E[auth P]|Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120)|Human immunodeficiency virus 1 (11676) GARSEVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTGAGHCNLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTGRNITLPCRIKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKIE |
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)
| Q: TRP1094 R: ILE1053 LEU1054 VAL1056 HIS1058 GLU1099 P: CYS1119 VAL1120 LEU1122 VAL1200 THR1202 GLN1203 ALA1204 CYS1205 ARG1419 ILE1420 LYS1421 GLN1422 ILE1423 LYS1432 MET1434 PRO1437 |
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)
