MolNFT v1 · #54559 · protein
Crystal structure of human nudix motif 16 (NUDT16) in complex with imp and magnesium
2XSQ · U8 snorna-decapping enzyme: “Crystal structure of human nudix motif 16 (NUDT16) in complex with imp and magnesium”. X-ray diffraction, 3 ligands (IMP, MG, CL), 1 pocket (best druggability 0.54). MolNFT v1 #54559 on GenesisL1: 3D…
- PDB
- 2XSQ
- Type
- protein
- Length
- 179 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- U8 snorna-decapping enzyme
- EC
- 3.6.1.-
- UniProt
- Q96DE0
- Ligands
- IMP, MG, CL
- Pockets
- 1 · best druggability 0.54
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | U8 snorna-decapping enzyme (EC 3.6.1.-) | protein | 179 | 30% helix, 34% strand | Q96DE0 |
Ligands and binding sites
- IMP · Inosinic acid · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 234 | 0.54 | 0.77 | 30 | IMP, MG |
Compared structures
- 2XSQ · Crystal structure of human Nudix motif 16 (NUDT16) in complex with IMP and magnesium · the same entry in another collection · chain A against A, TM-score 1.00
- Q96DE0 · AlphaFold monomer V2.0 prediction for U8 snorna-decapping enzyme (Q96DE0) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q96DE0
- Elsewhere: RCSB PDB 2XSQ · PDBe 2XSQ · UniProt Q96DE0
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