Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4472 |
| PDBID: | 7NQA |
| Chains: | D_A |
| Organism: | Xenopus tropicalis, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.20 |
| Reference: | 10.1038/s44318-024-00081-w |
| Antibody | |
| Antibody: | MS98-6 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Nuclear pore complex protein Nup98 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >7NQA_D|Chain B[auth C], D|Anti-Nup98 Nanobody MS98-6|Vicugna pacos (30538) GQVQLVESGGGLAKPGGSLRLSCVATGTFRSMEDVGWYRQAPGKDRELVAEITTLGKVTYADSVKGRFTISRDDAKNAVYLQMSDLKSEDTAVYYCNIEADQTKGIGYVVYPYWGQGTRVTVSS |
Antigen
Chain: A
Mutation: NULL
| >7NQA_A|Chain A, C[auth B]|Nuclear pore complex protein Nup98-Nup96|Xenopus tropicalis (8364) SHPAGIILTRDSYYTIPSMEELARSVDENGECIVNGFTIGREGFGSIYFEGIVNLTNLDLDSIVHIRRKEVIVYVDDQNKPPLGEGLNRPAQVTLDEVWPIDKTSRCMITSPERLSEMNYKSKLENASRKQGAQFVDYRPESGSWVFKVNHF |
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 D: ARG30 SER31 GLU33 ASP34 TYR38 ARG46 GLU51 THR53 THR54 LEU55 LYS57 ASN97 GLU99 ASP101 GLN102 THR103 LYS104 GLY105 ILE106 GLY107 TYR108 VAL109 VAL110 TYR111 PRO112 TYR113 TRP114 A: ARG781 ARG782 LYS783 GLU784 VAL785 ILE786 LEU809 VAL812 PRO814 ILE815 LYS817 THR818 ARG820 GLU831 MET832 ASN833 TYR834 SER836 LYS837 LEU838 ASN840 ALA841 LYS844 GLN845 ALA847 TRP859 PHE861 VAL863 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)
