MolNFT v1 · #116958 · protein
Crystal structure of the RNA-helicase PRP28 from chaetomium thermophilum bound to ADP
5DTU: “Crystal structure of the RNA-helicase PRP28 from chaetomium thermophilum bound to ADP”. X-ray diffraction, 2 ligands (ADP, MG), 5 pockets (best druggability 0.73). MolNFT v1 #116958 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5DTU
- Type
- protein
- Length
- 404 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PRP28
- UniProt
- G0SBQ7
- Ligands
- ADP, MG
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | PRP28 | protein | 404 | 37% helix, 15% strand | G0SBQ7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 733 | 0.73 | 0.79 | 79 | empty |
| 2 | 154 | 0.63 | 0.85 | 23 | empty |
| 3 | 156 | 0.45 | 0.75 | 21 | empty |
| 4 | 67 | 0.36 | 0.77 | 18 | empty |
| 5 | 80 | 0.30 | 0.73 | 19 | empty |
Compared structures
- 5DTU · Crystal structure of the RNA-helicase Prp28 from Chaetomium thermophilum bound to ADP · 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 G0SBQ7
- Elsewhere: RCSB PDB 5DTU · PDBe 5DTU · UniProt G0SBQ7
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