Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4467 |
| PDBID: | 7NOW |
| Chains: | C_D |
| Organism: | Vicugna pacos, Xenopus tropicalis |
| Method: | XRD |
| Resolution (Å): | 1.85 |
| Reference: | 10.1038/s44318-024-00081-w |
| Antibody | |
| Antibody: | MS98-27 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Nuclear pore complex protein Nup98 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >7NOW_C|Chain A, C|Anti-Nup98 nanobody MS98-27|Vicugna pacos (30538) GQVQLVESGGGLVQAGGSLRLSCAASGRTFSTYAMGWFRQAPGKEREFVSACSWSGGITRYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCASAASSAAYSGAYYYTSYYDYWGQGTQVTVSS |
Antigen
Chain: D
Mutation: NULL
| >7NOW_D|Chain B, D|Nuclear pore complex protein Nup98|Xenopus tropicalis (8364) GSHPAGIILTRDSYYTIPSMEELARSVDENGECIVNGFTIGREGFGSIYFEGIVNLTNLDLDSIVHIRRKEVIVYVDDQNKPPLGEGLNRPAQVTLDEVWPIDKTSRCMITSPERLSEMNYKSKLENASRKQGAQFVDYRPESGSWVFKVNHF |
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 C: GLY56 GLY57 ILE58 THR59 ARG60 TYR61 LYS66 SER102 SER103 ALA104 ALA105 TYR106 SER107 GLY108 ALA109 TYR110 TYR111 TYR112 SER114 TYR115 ASP117 D: ARG781 LYS783 GLU784 VAL785 ILE786 VAL787 TYR788 VAL789 ASP790 ASP791 GLN792 LYS794 LEU809 ARG843 LYS844 GLN845 GLY846 ALA847 TRP859 PHE861 VAL863 ASN864 HIS865 PHE866 |
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)
