MolNFT v1 · #183416 · protein
Complex of nucleoporin-98 and nanobody MS98-27 solved at 1.85A resolution
7NOW · Anti-NUP98 nanobody MS98-27: “Complex of nucleoporin-98 and nanobody MS98-27 solved at 1.85A resolution”. X-ray diffraction, 2 ligands (NA, SO4), 6 pockets (best druggability 0.51). MolNFT v1 #183416 on GenesisL1: 3D structure…
- PDB
- 7NOW
- Type
- protein
- Length
- 563 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Anti-NUP98 nanobody MS98-27; Nuclear pore complex protein NUP96
- UniProt
- A0A6I8PXX4
- Ligands
- NA, SO4
- Pockets
- 6 · best druggability 0.51
Structure
x-ray diffraction · 3 distinct chains · 13% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Anti-NUP98 nanobody MS98-27 | protein | 129 | 9% helix, 50% strand | — |
| B, D | Nuclear pore complex protein NUP96 | protein | 153 | 18% helix, 37% strand | A0A6I8PXX4 |
| C | Anti-NUP98 nanobody MS98-27 | protein | 128 | 12% helix, 48% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 296 | 0.51 | 0.74 | 39 | empty |
| 2 | 175 | 0.48 | 0.76 | 19 | SO4 |
| 3 | 172 | 0.43 | 0.74 | 24 | empty |
| 4 | 54 | 0.32 | 0.77 | 18 | empty |
| 5 | 75 | 0.32 | 0.74 | 17 | SO4 |
Interfaces
4 interfaces between chains.
- C–D · 890 Ų buried · 28 hydrogen bonds · protein-protein
- A–B · 857 Ų buried · 21 hydrogen bonds · protein-protein
- A–D · 378 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 373 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7NOW · Complex of Nucleoporin-98 and nanobody MS98-27 solved at 1.85A resolution · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt A0A6I8PXX4
- Elsewhere: RCSB PDB 7NOW · PDBe 7NOW · UniProt A0A6I8PXX4
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