Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2642 |
| PDBID: | 6ORQ |
| Chains: | DE_B |
| Organism: | Human immunodeficiency virus 1, Mus musculus |
| Method: | EM |
| Resolution (Å): | 4.40 |
| Reference: | 10.1038/s41586-019-1250-z |
| Antibody | |
| Antibody: | Ab275MUR Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIP-based immunogen RC1 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >6ORQ_D|Chain D, H, J|Ab275MUR antibody Fab heavy chain|Mus musculus (10090) EVQLQESGGDLVKPGGSLKLSCAASGFTFSRYGMSWVRQTPDKRLEWVATISSGGSYTYYPDSVKGRFTISRDNAKNTLYLQMSSLKSEDTAMYYCARHGITTVGVAMDYWGQGTYSHVSSA |
Light Chain: E
Mutation: NULL
| >6ORQ_E|Chain E, K, L|Ab275MUR antibody Fab light chain|Mus musculus (10090) DIVMTQSPASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPKLLIYAASNLESGIPARFSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPYTFGAGTKLELKRTDAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCXATHKTSTSPIVKSFNRNEC |
Antigen
Chain: B
Mutation: NULL
| >6ORQ_B|Chain B, G, I|RC1 variant of HIV-1 Env glycoprotein gp120|Human immunodeficiency virus 1 (11676) AENLWVTVYYGVPVWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLQCTNYAPNLLSNMRGELKQCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVIIRSENITNNAKNILVQLNTPVQINCTRPNNNTVKSIRIGPGQAFYYFGDIIGDIRMAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFAQSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSIVLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRV |
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: SER30 ARG31 ALA49 THR50 ILE51 SER52 GLY53 GLY54 SER55 TYR56 TYR59 HIS95 GLY96 ILE97 THR98 THR99 E: TYR27 ASP28 GLY29 ASP30 SER31 SER52 ASN92 GLU93 TYR96 B: THR132 ASN133 TYR134 ALA135 PRO136 LEU138 LEU139 SER140 ASN149 ARG151 LYS155 GLN156 ARG178 GLN183 ASN188 ASP321 ILE322 ILE323 GLY324 ASP325 ARG327 |
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)
