MolNFT v2 · #212999 · protein + RNA
Crystal structure of human TUT1 complexed with U6 snRNA
8IDF · Speckle targeted PIP5K1A-regulated poly(A) polymerase: “Crystal structure of human TUT1 complexed with U6 snRNA”. X-ray diffraction at 3.7, 1 ligand (ZN), 6 pockets (best druggability 0.79). MolNFT v2 #212999 on GenesisL1: 3D…
- PDB
- 8IDF
- Type
- protein + RNA
- Length
- 512 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.7
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- Molecule
- Speckle targeted PIP5K1A-regulated poly(A) polymerase; RNA (53-mer)
- EC
- 2.7.7.19, 2.7.7.52
- UniProt
- Q9H6E5
- Ligands
- ZN
- Pockets
- 6 · best druggability 0.79
Structure
x-ray diffraction · resolution 3.7 · 2 distinct chains · 40% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Speckle targeted PIP5K1A-regulated poly(A) polymerase (EC 2.7.7.19, 2.7.7.52) | protein | 459 | 40% helix, 16% strand | Q9H6E5 |
| B | RNA (53-mer) | rna | 53 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 146 | 0.79 | 0.95 | 27 | empty |
| 2 | 978 | 0.74 | 0.78 | 71 | empty |
| 3 | 330 | 0.66 | 0.81 | 36 | empty |
| 4 | 96 | 0.55 | 0.84 | 24 | empty |
| 5 | 143 | 0.49 | 0.79 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 2724 Ų buried · 53 hydrogen bonds · protein-nucleic
Compared structures
- Q9H6E5 · AlphaFold monomer V2.0 prediction for speckle targeted PIP5K1A-regulated POLY(A)… · a predicted model of the same protein · chain A against A, TM-score 0.72
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 Q9H6E5
- Elsewhere: RCSB PDB 8IDF · PDBe 8IDF · UniProt Q9H6E5
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