Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6700 |
| PDBID: | 3U4E |
| Chains: | AB_J |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.19 |
| Reference: | 10.1038/nature10696 |
| Antibody | |
| Antibody: | PG9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 CAP45 strain envelope glycoprotein gp120 V1V2 1FD6 scaffold |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >3U4E_A|Chain C[auth A], E[auth H]|PG9 Heavy Chain|Homo sapiens (9606) QRLVESGGGVVQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSEKYHADSVWGRLSISRDNSKDTLYLQMNSLRVEDTATYFCVREAGGPDYRNGYNYYDFYDGYYNYHYMDVWGKGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKGLEVLFQ |
Light Chain: B
Mutation: NULL
| >3U4E_B|Chain D[auth B], F[auth L]|PG9 Light Chain|Homo sapiens (9606) QSALTQPASVSGSPGQSITISCQGTSNDVGGYESVSWYQQHPGKAPKVVIYDVSKRPSGVSNRFSGSKSGNTASLTISGLQAEDEGDYYCKSLTSTRRRVFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: J
Mutation: NULL
| >3U4E_J|Chain A[auth G], B[auth J]|V1V2 region of HIV-1 on 1FD6 scaffold|Human immunodeficiency virus 1 (11676) MTTFKLAACVTLRCTNATINGSLTEEVKNCSFNITTELRDKKQKAYALFYRPDVVPLNKNSPSGNSSEYILINCQTTTTEAVDAATAAKVFKQYANDNGIDGEWTYDDATKTFTVTEGLEVLFQ |
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)
| A: ARG31 J: SER158 ASN160 THR162 ARG166 ASP167 LYS168 LYS169 GLN170 LYS171 ALA172 TYR173 ASP223 GLU242 |
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)
