Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6200 |
| PDBID: | 8FR6 |
| Chains: | DE_A |
| Organism: | Human immunodeficiency virus 1, Mus musculus |
| Method: | EM |
| Resolution (Å): | 2.50 |
| Reference: | 10.1128/jvi.01604-22 |
| Antibody | |
| Antibody: | vFP53.02 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 DS-SOSIP.664 envelope glycoprotein - gp41 |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >8FR6_D|Chain G[auth D], I[auth H], K[auth J]|vFP53.02 Fab heavy chain|Mus musculus (10090) QAQLQQSGTELVRPGASVTLSCKASGYKFNDYEIHWVKQTPVHGLEWIGAIVPETGFTAYSQKFRGKALLTADKSSSTVYMDLRSLTSADSAVFYCSRLQLFGYFDVWGTGTTVIVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKGLEVLFQ |
Light Chain: E
Mutation: NULL
| >8FR6_E|Chain H[auth E], J[auth K], L|vFP53.02 Fab light chain|Mus musculus (10090) DVLMTQNPLSLPVSLGDQASISCRSSQSVVYSDGNAYLEWYLQKPGQSPKLLIYKASNRFSGVPDRFSASGSGTDFTLRISRVETEDLGLYYCFQGTHIPYTFGGGTKLEMKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: T94C
| >8FR6_A|Chain A, B, D[auth F]|Envelope glycoprotein gp41|Human immunodeficiency virus 1 (11676) AVGIGAVFLGFLGAAGSTMGAASMTLTVQARNLLSGIVQQQSNLLRAIEAQQHLLKLTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICCTNVPWNSSWSNRNLSEIWDNMTWLQWDKEISNYTQIIYGLLEESQNQQEKNEQDLLALD |
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)
| D: GLU33 HIS35 TRP47 ALA50 GLU53 THR54 PHE56 ALA58 LEU95 LEU97 PHE98 GLY99 PHE100 E: TYR32 GLU34 PHE89 GLY91 THR92 ILE94 TYR96 A: ALA512 VAL513 GLY514 ILE515 GLY516 ALA517 VAL518 PHE519 GLY524 SER528 THR529 ALA532 MET535 |
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)
