Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2217 |
| PDBID: | 6FY1 |
| Chains: | YZ_X |
| Organism: | Homo sapiens, Human immunodeficiency virus 1 |
| Method: | XRD |
| Resolution (Å): | 3.13 |
| Reference: | 10.1038/s41467-018-06794-x |
| Antibody | |
| Antibody: | CAP228-16H Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | CAP228 Autologous Scaffolded V1V2 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: Y
Mutation: NULL
| >6FY1_Y|Chain A[auth H], D[auth Y]|CAP228-16H Heavy Chain|Homo sapiens (9606) EVQLVQSGAEVKKPGESLKISCKGSGYRFPSSWIGWVRQVPGKGLEWMGIIYPGDGETRYRASFQGQVTISADQSSNTAYLQWSSLKASDTAMYYCARHGRGVREVINAFDIWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKGLEVLFQ |
Light Chain: Z
Mutation: NULL
| >6FY1_Z|Chain C[auth L], F[auth Z]|CAP228-16H Light Chain|Homo sapiens (9606) SYELTQPPSVSVAPGTTATITCGGVDIGSTLVHWYQQRPGQAPLLVIYDDSDRPSGIPERFSGSNSGNMATLTISRVEAGDEADYYCQVWHSTSAVIFGGGTKLTVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: X
Mutation: NULL
| >6FY1_X|Chain B[auth G], E[auth X]|CAP228 Autologous Scaffolded V1V2|Human immunodeficiency virus 1 (11676) MTTFKLAACVTLKCSTYNDSIEEEIQRCLFNTTTEIRDKKQKAYALFYKYDIVPLKGNNSEYILINCQTTTTEAVDAATAAKVFKQYANDNGIDGEWTYDDATKTFTVTEGLEVLFQ |
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)
| Chain residues position delta_SASA
: residuesposition Y: ARG28 PRO30 SER31 TRP33 ASP54 GLU56 ARG58 HIS95 GLY96 ARG97 GLY98 VAL99 Z: GLY29 SER30 THR31 LEU32 TYR49 ASP50 ASP51 SER52 ASP53 ARG54 ASN66 TRP91 SER93 X: LEU129 LYS130 CYS131 LEU158 GLU164 ILE165 ARG166 LYS168 LYS169 LYS171 ALA172 TYR173 LEU175 PHE176 TYR177 LYS178 TYR179 ASP180 VAL182 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
