Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6245 |
| PDBID: | 8GAS |
| Chains: | CA_E |
| Organism: | Mus musculus, Human immunodeficiency virus 1 |
| Method: | EM |
| Resolution (Å): | 4.04 |
| Reference: | 10.1128/jvi.01604-22 |
| Antibody | |
| Antibody: | vFP48.02 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 DS-SOSIP envelope glycoprotein - gp41 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: C
Mutation: NULL
| >8GAS_C|Chain B[auth C], F[auth H], J[auth I]|vFP48.02 heavy chain|Mus musculus (10090) QVQLQQPGAEFVKPGASVRMSCKASGYTFTSYWIAWVKQRPGQGLEWIGDIYPGSGYTNYNGKFKNRATLTVDTSSNTAYMQLSSLTSEDSAVYYCTRGGTTFVAEPWLAYWGQGTLVAVSA |
Light Chain: A
Mutation: NULL
| >8GAS_A|Chain A, E[auth F], I[auth L]|vFP48.02 light chain|Mus musculus (10090) DVVMTQTPLTLSVTIGQPASISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGSGSGTDFTLKISRVEAEDLGIYYCWQGTHFPQTFGGGTRLEIK |
Antigen
Chain: E
Mutation: NULL
| >8GAS_E|Chain D[auth B], H[auth E], L[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)
| A: TYR32 GLY91 THR92 HIS93 PHE94 C: TRP33 TRP47 ASP50 SER54 TYR56 ASN58 THR98 PHE99 E: ALA512 VAL513 GLY514 ILE515 GLY516 VAL518 PHE519 LEU520 GLY521 SER528 THR529 ALA532 |
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)
