Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3041 |
| PDBID: | 6VO1 |
| Chains: | HL_A |
| Organism: | Human immunodeficiency virus 1, Macaca mulatta |
| Method: | EM |
| Resolution (Å): | 3.88 |
| Reference: | 10.1371/journal.ppat.1008753 |
| Antibody | |
| Antibody: | RM20J Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIP.v5.2 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >6VO1_H|Chain C[auth G], G[auth H], K[auth I]|RM20J Heavy chain Fab|Macaca mulatta (9544) QVQLQESGPAVVQPSETLSLTCAVSGGSISGGYGWTWIRQAPGKALEWIGNIYGHSGSTNYKSSLKRRLTISTDTSKNQFSLKLTSVTAADTAVYYCARWSTADFDYWGQGVLVTVSS |
Light Chain: L
Mutation: NULL
| >6VO1_L|Chain D[auth J], H[auth K], L|RM20J Kappa light chain|Macaca mulatta (9544) DIVMTQSPSSLSASVGDTVTITCRASQDITNDLAWYQQKPGKAPKALIYYASNLESGVPSRFSGSGAGTDFTLTISSLQPEDFALYYCQQHNNYPLTFGPGTKVDIK |
Antigen
Chain: A
Mutation: NULL
| >6VO1_A|Chain A, E[auth C], I[auth D]|Envelope glycoprotein gp120|Human immunodeficiency virus 1 (11676) AENLWVTVYYGVPVWKDAETTLFCASDAKAYETKKHNVWATHCCVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQWFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRVVG |
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: GLN1 GLY31 GLY32 TYR33 HIS53 SER54 SER56 THR57 ASN58 ARG94 TRP95 SER96 THR97 ALA98 ASP99 ASP101 L: THR30 ASN31 ASP32 TYR49 TYR50 SER52 ASN53 LEU54 GLU55 SER56 GLY57 VAL58 PHE62 SER63 GLY64 SER65 TYR94 A: LYS231 LYS232 LEU265 ALA266 GLU267 GLU268 GLU269 ASN289 THR290 GLU340 LYS344 LYS347 GLN348 ARG350 LYS351 PHE353 GLY354 ASN355 ASN356 SER397 ASN398 THR399 SER400 |
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)
