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Crystal structure of the C-terminal domain of nuclear pore complex component NUP116 from candida glabrata
Analyse Crystal structure of the C-terminal domain of nuclear pore complex component… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3NF5
- Type
- protein
- Length
- 308 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoporin NUP116
- UniProt
- Q6FU56
- Pockets
- 3 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 14% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleoporin NUP116 | protein | 156 | 15% helix, 29% strand | Q6FU56 |
| B | Nucleoporin NUP116 | protein | 152 | 13% helix, 28% strand | Q6FU56 |
Ligands and binding sites
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 267 | 0.62 | 0.80 | 39 | GOL |
| 2 | 134 | 0.41 | 0.74 | 23 | empty |
| 3 | 120 | 0.39 | 0.74 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 709 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 3NF5 · Crystal structure of the C-terminal domain of nuclear pore complex component NUP116 from… · 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 Q6FU56
- Elsewhere: RCSB PDB 3NF5 · PDBe 3NF5 · UniProt Q6FU56
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