Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2775 |
| PDBID: | 6QUP |
| Chains: | B_A |
| Organism: | Lotus japonicus, Lama glama |
| Method: | XRD |
| Resolution (Å): | 1.87 |
| Reference: | 10.1038/s41467-020-17568-9 |
| Antibody | |
| Antibody: | Nb186 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | exo-polysaccharides (EPS) LysM type receptor kinase |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >6QUP_B|Chain B|Nanobody 186 (Nb186)|Lama glama (9844) MQVQLVESGGGLVQPGGSLRLSCAASGSIFSIDYMGWYRQAPGKERELVAIKTSGGTTHYADSVKGRFTISRDNAKNTVYLQMNSLKPDDTAVYYCNARVYFGDRDYWGQGTQVTVSSLEHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >6QUP_A|Chain A|LysM type receptor kinase|Lotus japonicus (34305) LEVSSKTTYMEPFNCSTKIRTCNSLLYHISIGLKVEEIARFYSVNLSRIKPITRGTKQDYLVSVPCTCRNTNGLNGYFYHTSYKVKVNDSFVDIQNLFYSGQAWPVNEDLVVPNETMTIHIPCGCSESGSQIVVTYTVQRNDTPLSIALLLNATVEGMVSVNSVMAPNPTFIDVGWVLYVPKELNPISHGKENKHKLEKIHHHHHH |
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: ASP33 TYR34 TYR38 GLU47 LEU48 ILE51 LYS52 THR53 SER54 GLY55 GLY56 THR57 THR58 HIS59 ALA61 ASP62 SER63 LYS65 ARG99 TYR101 PHE102 GLY103 ASP104 ARG105 ASP106 A: SER36 SER37 THR40 ILE61 SER62 ILE63 GLY64 LEU65 LYS66 GLU69 ARG72 PHE73 ARG86 LYS89 LYS118 VAL119 ASN120 ASP121 SER122 VAL124 ASP125 ILE126 ASN128 LEU129 PHE130 SER132 GLY133 THR169 VAL170 GLN171 ARG172 ASN173 VAL206 GLY207 |
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)
