Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6390 |
| PDBID: | 8HLB |
| Chains: | DE_A |
| Organism: | Homo sapiens, Escherichia coli K-12 |
| Method: | EM |
| Resolution (Å): | 3.63 |
| Reference: | 10.1038/s42003-023-05326-8 |
| Antibody | |
| Antibody: | 92 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Human tumor necrosis factor receptor 2 (TNFR2) |
| Antigen mutation: | Yes |
| Durg Target: | P0AEX9; P20333; P0AEX9; P20333; |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >8HLB_D|Chain D|TR92 heavy chain|Homo sapiens (9606) KVQLQQSGAELVKPGASVKLSCKASGYTFTESIIHWVKQRSGQGLEWIGWFYPGSDNINYNEKFKDKATLTADKSSSTVYMELTRLTSEDSAVYFCASHEGPYVYFDYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLG |
Light Chain: E
Mutation: NULL
| >8HLB_E|Chain E|TR92 light chain|Homo sapiens (9606) DIVMTQSHKFMSTSVGDRVSITCKASQDVSTAVAWYQQKPGQSPKLLIYWTSTRHTGVPDRFTGSGSGTDYTLTISSVQAEDLALYYCQHHYSTPYTFGGGTKLEIQRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: A490V
| >8HLB_A|Chain A|Tumor necrosis factor receptor superfamily member 1B,Maltose/maltodextrin-binding periplasmic protein|Homo sapiens (9606) LPAQVAFTPYAPEPGSTCRLREYYDQTAQMCCSKCSPGQHAKVFCTKTSDTVCDSCEDSTYTQLWNWVPECLSCGSRCSSDQVETQACTREQNRICTCRPGWYCALSKQEGCRLCAPLRKCRPGFGVARPGTETSDVVCKPCAPGTFSNTTSSTDICRPHQICNVVAIPGNASMDAVCKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELVKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQGHHHHHH |
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: TYR27 GLU31 SER32 ILE33 TRP50 TYR52 SER55 ASN57 SER98 HIS99 GLU100 GLY101 PRO102 TYR103 VAL104 TYR108 E: SER30 THR31 TYR49 TRP50 THR53 HIS91 TYR92 TYR96 A: SER80 ASP81 GLN82 ARG99 TRP102 ALA105 LEU106 SER107 LYS108 GLN109 CYS112 ARG113 LEU114 CYS115 ALA116 PRO117 |
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)
