Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2148 |
| PDBID: | 6DBG |
| Chains: | D_A |
| Organism: | Listeria monocytogenes, Camelus dromedarius |
| Method: | XRD |
| Resolution (Å): | 1.51 |
| Reference: | 10.1074/jbc.RA118.003888 |
| Antibody | |
| Antibody: | R303 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Listeria virulence factor IInternalin B |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6DBG_D|Chain C, D|VHH R303|Camelus dromedarius (9838) QVKLEESGGGSVQAGGSLRLSCAASGHTYSTYCMGWFRQVPGKEREGVARINVGGSSTWYADSVRDRFTISQDNAKNTVYLQMNSLKLEDTAIYYCTLHRFCNTWSLGTLNVWGQGTQVTVSSGSEQKLISEEDLNHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >6DBG_A|Chain A, B|Internalin B|Listeria monocytogenes (1639) GAMETITVPTPIKQIFSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEVSFIFYQPVTIGKAKARFHGRVTQPLKENLYFQGHHHHHH |
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: LYS3 GLU5 GLU6 SER7 SER25 A: LYS139 ASP140 LYS142 HIS162 PRO164 |
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)
