Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1807 |
| PDBID: | 5VGJ |
| Chains: | HL_G |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.46 |
| Reference: | 10.1016/j.immuni.2017.04.011 |
| Antibody | |
| Antibody: | VRC38.01 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | 1FD6-V1V2-WITO |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5VGJ_H|Chain B[auth H]|VRC38.01 Fab Heavy Chain|Homo sapiens (9606) EVQLVESGGKLVQPGGSLRLSCEASGESVGDNDMHWVRQVAGKGLEWVSSIGSSGDTYYIDAVKGRFTVSRDKGRNSVYLQMKTLTVGDTGVYFCVRGPESGWFYHYYWGLGVWGRGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKGLEVLFQ |
Light Chain: L
Mutation: NULL
| >5VGJ_L|Chain C[auth L]|VRC38.01 Fab Light Chain|Homo sapiens (9606) DLLMTQSPHSLAVTPGEPASISCRSSQSLLLGNGRNYLDWYVQKPGQSPQLLIYLGSNRASGVPDRFSGSGSGTYFTLKISRVEAEDVGFYYCMEARQTPRLTFGGGTKLEIRRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: G
Mutation: NULL
| >5VGJ_G|Chain A[auth G]|1FD6-V1V2-WITO|Human immunodeficiency virus 1 (11676) MTTFKLAACVTLHCTNVTISSTNGSTANVTMREEMKNCSFNTTTVIGNSTGRDKIQKEYALFYKLDIVPIEGKNTNTGYRLINCQTTTTEAVDAATAAKVFKQYANDNGIDGEWTYDDATKTFTVTEGLEVLFQ |
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: ASP31 GLU97 L: GLY27 ASN28 ARG30 G: HIS130 THR132 ASN133 VAL134 THR135 ILE136 ASN156 SER158 PHE159 ASN160 LYS168 LYS171 GLU172 TYR173 |
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)
