Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6238 |
| PDBID: | 8G85 |
| Chains: | FI_B |
| Organism: | Human immunodeficiency virus 1, Mus musculus |
| Method: | EM |
| Resolution (Å): | 3.99 |
| Reference: | 10.1128/jvi.01604-22 |
| Antibody | |
| Antibody: | vFP52.02 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 DS-SOSIP.664 envelope glycoprotein - gp41 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >8G85_F|Chain G[auth A], I[auth F], K[auth H]|vFP52.02 Heavy|Mus musculus (10090) DVQLQESGPGLVKPSQSLSLTCSVTGYSITSAYYWNWIRQFPGKKLEWMGYLLYDGSTGYNPSLKNRISITRDTSKNQFFLKLNSVTPEDTATYYCSREGNNRSYWGQGTTLIVSS |
Light Chain: I
Mutation: NULL
| >8G85_I|Chain H[auth C], J[auth I], L|vFP52.02 Light|Mus musculus (10090) DIVMTQSHRFMSTSVGDRVSITCKASQSVDTAVAWYQQKPGQSPKLLIYWASTRHPGVPDRFTGSGSGTDFILTISNVQSEDLADYFCHQFDRYPLTFGDGTKLELK |
Antigen
Chain: B
Mutation: NULL
| >8G85_B|Chain B, D[auth E], F[auth K]|Envelope glycoprotein gp41|Human immunodeficiency virus 1 (11676) AVGIGAVFLGFLGAAGSTMGAASMTLTVQARNLLSGIVQQQSNLLRAPEAQQHLLKLTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICCTNVPWNSSWSNRNLSEIWDNMTWLQWDKEISNYTQIIYGLLEESQNQQEKNEQDLLALD |
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)
| F: ALA32 TYR33 TYR34 LEU52 TYR53 GLU95 GLY96 ASN97 ASN98 ARG99 I: ALA32 ALA34 TYR36 LEU46 TYR49 TRP50 PHE91 ASP92 ARG93 TYR94 LEU96 B: ALA512 VAL513 GLY514 ILE515 GLY516 ALA517 PHE519 |
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)
