Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6243 |
| PDBID: | 8G9Y |
| Chains: | HL_D |
| Organism: | Human immunodeficiency virus 1, Mus musculus |
| Method: | EM |
| Resolution (Å): | 4.28 |
| Reference: | 10.1128/jvi.01604-22 |
| Antibody | |
| Antibody: | vFP49.02 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: H
Mutation: NULL
| >8G9Y_H|Chain E[auth H]|vFP49.02 heavy chain|Mus musculus (10090) EVMLVESGGGLVKPGGSLKLSCEASGFSFGFYSLSWVRQTPEKRLEWVATIAGSGVGGQTYYPDSVKGRFTISRDNAKNTLYLQMSSLRSEDTAVFYCARHGEGKYGSNFAYWGQGTTLTVSSASTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDCDKGLEVLFQG |
Light Chain: L
Mutation: NULL
| >8G9Y_L|Chain F[auth L]|vFP49.02 light chain|Mus musculus (10090) DVVLTQSPATLSVTPGDSVSLSCRASQTISDNLHWYLQKSHESPRLLIKYSSQSISGIPSRFSGSGSGTDFTLNINSVETEDFGMYFCQQTNSWPLTFGAGTKLELKRTDAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: D
Mutation: NULL
| >8G9Y_D|Chain A[auth B], B[auth D], G[auth O]|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)
| H: PHE27 SER28 PHE31 TYR32 SER33 THR50 GLY52 VAL53 TYR58 HIS95 GLY96 GLU97 GLY98 LYS99 L: ASN32 TYR50 THR91 ASN92 SER93 TRP94 LEU96 D: ALA512 VAL513 GLY514 ILE515 GLY516 ALA517 VAL518 PHE519 LEU520 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)
