Research workbench
Helicase Sen1
Analyse Helicase Sen1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MZN
- Type
- protein
- Length
- 682 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.787
- Source
- Saccharomyces cerevisiae S288c
- Molecule
- Helicase SEN1,Helicase SEN1
- EC
- 3.6.4.-
- UniProt
- Q00416
- Ligands
- ADP, MG
- Pockets
- 9 · best druggability 0.54
Structure
x-ray diffraction · resolution 1.787 · 1 distinct chain · 42% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Helicase SEN1,Helicase SEN1 (EC 3.6.4.-) | protein | 682 | 42% helix, 19% strand | Q00416 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
- EDO · 1,2-ethanediol · additive · 40 copies · chains A
- GOL · Glycerol · additive · 12 copies · chains A
- PEG · Di(hydroxyethyl)ether · additive · 11 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 311 | 0.54 | 0.75 | 35 | EDO |
| 2 | 274 | 0.52 | 0.75 | 34 | ADP, EDO, PEG, MG |
| 3 | 194 | 0.49 | 0.76 | 28 | EDO |
| 4 | 80 | 0.48 | 0.82 | 19 | empty |
| 5 | 163 | 0.46 | 0.76 | 26 | empty |
Modifications
Observed in the structure: 2 covalent (additive adduct).
Compared structures
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 Q00416
- Elsewhere: RCSB PDB 5MZN · PDBe 5MZN · UniProt Q00416
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