Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2841 |
| PDBID: | 6SSI |
| Chains: | I_D |
| Organism: | Dickeya chrysanthemi, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.59 |
| Reference: | 10.7554/eLife.51511 |
| Antibody | |
| Antibody: | 22 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Cys-loop ligand-gated ion channel |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: I
Mutation: NULL
| >6SSI_I|Chain F, G, H, I, J|NANOBODY 22|Lama glama (9844) QVQLQESGGGLAQAGGSMRLSCIASGRNFFINIMNWYRQAPGKQRELVAQITRAGTTTYADSVKGRFTISRDNAKNTVYLQMSTLQSEDTAVYYCNVGASWGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: D
Mutation: NULL
| >6SSI_D|Chain A, B, C, D, E|Cys-loop ligand-gated ion channel|Dickeya chrysanthemi (556) GPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG |
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)
| I: GLN1 VAL2 ARG27 ASN28 PHE29 PHE30 ILE31 ASN32 ILE33 ASN35 GLN50 THR52 VAL97 GLY98 ALA99 SER100 D: ASP13 SER15 GLN42 ARG141 PHE142 SER143 ASP144 ILE145 GLN146 VAL147 TYR148 THR149 GLY164 LYS165 ALA166 THR168 HIS169 ILE170 |
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)
