Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3173 |
| PDBID: | 6X05 |
| Chains: | K_A |
| Organism: | Saccharomyces cerevisiae S288C, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.10 |
| Reference: | 10.1038/s41467-020-19885-5 |
| Antibody | |
| Antibody: | SAN4 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Nucleoporin NUP133(aa55-481) from S. cerevisiae |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: K
Mutation: NULL
| >6X05_K|Chain B[auth K]|VHH-SAN4|Vicugna pacos (30538) QLQLVESGGGSVQAGGSLTLSCTASESISKRIHGIGWFRQRRGEQREEIAYITTGGRPNLGDSVKDRFTISRDKSNGTVYLQMNSLKPEDTAVYYCHGRGRWWGTEGRLDYWGQGTQVTVSS |
Antigen
Chain: A
Mutation: NULL
| >6X05_A|Chain A|Nucleoporin NUP133|Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (559292) GFDNSKVFTENNRYIVKTLQTDYSSGFSNDDELNGYIDMQIGYGLVNDHKKVYIWNIHSTQKDTPYITVPFRSDDNDEIAVAPRCILTFPATMDESPLALNPNDQDETGGLIIIKGSKAIYYEDINSINNLNFKLSEKFSHELELPINSSGGEKCDLMLNCEPAGIVLSTNMGRIFFITIRNSMGKPQLKLGKLLNKPFKLGIWSKIFNTNSSVVSLRNGPILGKGTRLVYITTNKGIFQTWQLSATNSHPTKLIDVNIYEAILESLQDLYPFAHGTLKIWDSHPLQDESSQLFLSSIYDSSCNETYYILSTIIFDSSSNSFTIFSTYRLNTFMESITDTKFKPKIFIPQMENANDTNEVTSILVMFPNAVVITQVNSKLDSSYSMRRKWEDIVSLRNDIDIIGSGYDSKSLYVLTKQMGVLQFFVKE |
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)
| K: ARG99 ARG101 TRP102 TRP103 GLY104 THR105 ARG108 LEU109 A: ASP309 VAL310 ASN311 GLU314 ALA315 GLU318 ASP322 ILE367 ASP369 ASN373 SER374 PHE375 THR376 ILE377 |
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)
