Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2146 |
| PDBID: | 6DBF |
| Chains: | B_A |
| Organism: | Listeria monocytogenes, Camelus dromedarius |
| Method: | XRD |
| Resolution (Å): | 1.55 |
| 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: B
Mutation: NULL
| >6DBF_B|Chain B|InlB specific VHH R303|Camelus dromedarius (9838) QVKLEESGGGSVQAGGSLRLSCAASGHTYSTYCMGWFRQVPGKEREGVARINVGGSSTWYADSVRDRFTISQDNAKNTVYLQMNSLKLEDTAIYYCTLHRFCNTWSLGTLNVWGQGTQVTVSSGSEQKLISEEDLNHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >6DBF_A|Chain A|Listeria virulence factor InlB|Listeria monocytogenes (1639) MGSHHHHHHENLYFQGETITVSTPIKQIFPDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKPLVNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQEALNKPIN |
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: SER30 THR31 ARG50 ASN52 GLY55 SER56 SER57 ARG100 PHE101 CYS102 ASN103 THR104 SER106 LEU107 THR109 LEU110 A: GLN81 ILE83 ASN85 LYS103 PHE105 ASN107 TRP125 PHE127 SER147 GLU151 GLU168 SER169 TYR171 ASP190 THR191 SER193 GLU195 GLN212 ASN213 TYR215 ASP234 VAL235 GLU237 PHE239 |
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)
