Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1264 |
| PDBID: | 5DMI |
| Chains: | HL_A |
| Organism: | Homo sapiens, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 3.69 |
| Reference: | 10.1016/j.jmb.2016.05.014 |
| Antibody | |
| Antibody: | Chi220 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | Teneliximab(Phase-II) |
| Antigen | |
| Antigen: | Tumor necrosis factor receptor superfamily member 5(extracellular domain of the CD40) |
| Antigen mutation: | No |
| Durg Target: | P25942 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5DMI_H|Chain B[auth H]|Chi220 Fab heavy chain|Mus musculus (10090) QIQLVQSGPELKKPGETVRISCKASGYAFTTTGMQWVQEMPGKGLKWIGWINTHSGVPKYVEDFKGRFAFSLETSANTAYLQISNLKNEDTATYFCVRSGNGNYDLAYFAYWGQGTLVTVSAASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK |
Light Chain: L
Mutation: NULL
| >5DMI_L|Chain C[auth L]|Chi220 Fab light chain|Mus musculus (10090) DIVLTQSPATLSVTPGDRVSLSCRASQSISDYLHWYQQKSHESPRLLIKYASHSISGIPSRFSGSGSGSDFTLSINSVEPEDVGIYYCQHGHSFPWTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGE |
Antigen
Chain: A
Mutation: NULL
| >5DMI_A|Chain A|Tumor necrosis factor receptor superfamily member 5|Homo sapiens (9606) PTACREKQYLINSQCCSLCQPGQKLVSDCTEFTETECLPCGESEFLDTWNRETHCHQHKYCDPNLGLRVQQKGTSETDTICTCEEGWHCTSEACESCVLHRSCSPGFGVKQIATGVSDTICEPCPVGFFSDVSSAFEKCHPWTSCETKDLVVQQAGTDKTDVVCGPQDRLRDPGGGGGRLVPR |
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)
| Chain residues position delta_SASA
: residuesposition H: THR31 ASN97 GLY98 ASN99 L: SER28 SER30 ASP31 TYR32 LYS49 TYR50 HIS53 SER67 GLY68 GLY91 HIS92 SER93 TRP96 A: ASN34 SER35 LYS46 LEU47 VAL48 SER49 ASP50 CYS51 THR52 LEU60 PRO61 GLY63 GLU64 SER65 GLU66 ARG73 THR75 HIS76 GLN79 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
