Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1274 |
| PDBID: | 5E0Q |
| Chains: | A_B |
| Organism: | Vicugna pacos, Xenopus tropicalis |
| Method: | XRD |
| Resolution (Å): | 1.90 |
| Reference: | 10.7554/eLife.11349 |
| Antibody | |
| Antibody: | TP377 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Nuclear pore complex protein Nup98-Nup96 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: A
Mutation: NULL
| >5E0Q_A|Chain A|Anti-Nup98 Nanobody TP377|Vicugna pacos (30538) GSQVQLVESGGGPVEAGGSLRLSCAASGRSFSNSVMAWFRQAPGKEREFLSVLNWSSGRTSIADSVKGRFTMSRDPAKITVYLQMNGLKPEDTAVYYCAASNRGSLYTLDNQNRYEDWGQGTQVTVSS |
Antigen
Chain: B
Mutation: NULL
| >5E0Q_B|Chain B|Nuclear pore complex protein Nup98-Nup96|Xenopus tropicalis (8364) GSHPAGIILTRDSYYTIPSMEELARSVDENGECIVNGFTIGREGFGSIYFEGIVNLTNLDLDSIVHIRRKEVIVYVDDQNKPPLGEGLNRPAQVTLDEVWPIDKTSRSMITSPERLSEMNYKSKLENASRKQGAQFVDYRPESGSWVFKVNHF |
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)
| A: ARG29 SER30 SER32 ASN33 SER34 VAL35 ASN54 TRP55 SER56 SER57 GLY58 ARG59 ARG74 PRO76 SER101 ASN102 ARG103 GLY104 SER105 LEU106 TYR107 THR108 LEU109 ARG114 B: SER715 HIS716 PRO717 ALA718 GLY719 ILE721 VAL740 ASN743 GLY744 GLU745 ASN768 THR770 ASN771 LEU772 ASP773 ASP775 SER776 ILE777 TYR788 GLN792 ASN793 PRO795 PRO796 GLU799 GLY800 |
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)
