Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6389 |
| PDBID: | 8HLB |
| Chains: | BC_A |
| Organism: | Homo sapiens, Escherichia coli K-12 |
| Method: | EM |
| Resolution (Å): | 3.63 |
| Reference: | 10.1038/s42003-023-05326-8 |
| Antibody | |
| Antibody: | 109 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: B
Mutation: NULL
| >8HLB_B|Chain B|TR109 heavy chain|Homo sapiens (9606) QVQLKESGPGLVAPSQSLSITCTVSGFSLTVYGVNWVRQPPGKGLEWLGMIWGDGSTAYNSALKSRLTITKDNSKTQVFLKMNSLQTDDTARYYCARDGRRYALDYWGQGTSVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCFNTHTCPPCPAPELLG |
Light Chain: C
Mutation: NULL
| >8HLB_C|Chain C|TR109 light chain|Homo sapiens (9606) DIVLTQSPTSLAVSLGQRATISCRASESVDSYGDSFLHWYQQKPGQPPILLIYRASNLDSGIPARFSGSGSRTDFTLTINPVEADDVATYYCQQSNEDPYTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
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)
| B: VAL2 VAL31 TYR32 TRP52 GLY53 ARG97 ASP98 GLY99 ARG100 ARG101 TYR102 TYR106 C: SER31 TYR32 GLY33 PHE36 TYR53 ARG54 ASN57 SER60 GLY61 SER95 ASN96 TYR100 A: PRO12 GLU13 PRO14 GLY15 SER16 THR17 CYS18 TYR23 TYR24 ASP25 GLN26 THR27 GLN29 LYS42 VAL43 PHE44 CYS45 THR46 TRP67 VAL68 PRO69 GLU70 LEU72 |
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)
