Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1100 |
| PDBID: | 4YBL |
| Chains: | HL_G |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.10 |
| Reference: | 10.1016/j.str.2016.03.005 |
| Antibody | |
| Antibody: | A32 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 clade A/E gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >4YBL_H|Chain B, E[auth H]|A32 antibody Fab heavy chain|Homo sapiens (9606) QVQLQESGPGLVKPSQTLSLSCTVSGGSSSSGAHYWSWIRQYPGKGLEWIGYIHYSGNTYYNPSLKSRITISQHTSENQFSLKLNSVTVADTAVYYCARGTRLRTLRNAFDIWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPK |
Light Chain: L
Mutation: NULL
| >4YBL_L|Chain C, F[auth L]|A32 antibody light chain|Homo sapiens (9606) VLTQPPSASGSPGQSVTISCTGTSSDVGGYNYVSWYQHHPGKAPKLIISEVNNRPSGVPDRFSGSKSGNTASLTVSGLQAEDEAEYYCSSYTDIHNFVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAP |
Antigen
Chain: G
Mutation: NULL
| >4YBL_G|Chain A, D[auth G]|Stabilized inner domain of clade A/E gp120|Human immunodeficiency virus 1 (11676) VPVWKDADTTLFCASDAKAHETECHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQCLQPGGAPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSSGGGNIKDNWRSELYKYKVVQIE |
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: SER28 GLY32 ALA33 HIS34 HIS52 TYR53 SER54 ASN56 TYR58 ARG97 LEU98 ARG99 L: GLY29 TYR30 ASN31 TYR32 TYR91 ILE94 G: THR51 LEU52 PHE53 CYS54 ALA60 HIS61 TRP69 THR71 HIS72 ALA73 CYS74 VAL75 PRO76 THR77 ASP78 GLN103 GLU106 ASP107 SER110 ASP113 GLN114 TYR217 THR219 PRO220 ALA221 |
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)
