MolNFT v1 · #137204 · protein
DHX36 with an N-terminal truncation bound to ADP-ALF4
5VHD · Deah (asp-glu-ala-his) box polypeptide 36: “DHX36 with an N-terminal truncation bound to ADP-ALF4”. X-ray diffraction, 2 ligands (ADP, ALF), 9 pockets (best druggability 0.80). MolNFT v1 #137204 on GenesisL1: 3D structure, binding…
- PDB
- 5VHD
- Type
- protein
- Length
- 795 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Deah (asp-glu-ala-his) box polypeptide 36
- UniProt
- Q05B79
- Ligands
- ADP, ALF
- Pockets
- 9 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | Deah (asp-glu-ala-his) box polypeptide 36 | protein | 795 | 47% helix, 17% strand | Q05B79 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains D
- ALF · Tetrafluoroaluminate ion · ligand · chains D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 721 | 0.80 | 0.84 | 78 | empty |
| 2 | 262 | 0.70 | 0.85 | 35 | empty |
| 3 | 219 | 0.63 | 0.83 | 38 | ADP, ALF |
| 4 | 68 | 0.59 | 0.89 | 17 | empty |
| 5 | 146 | 0.53 | 0.80 | 26 | empty |
Compared structures
- 5VHD · DHX36 with an N-terminal truncation bound to ADP-AlF4 · the same entry in another collection · chain D against D, TM-score 1.00
- Q05B79 · AlphaFold monomer V2.0 prediction for ATP-dependent DNA/RNA helicase DHX36 (Q05B79) · a predicted model of the same protein · chain D 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 Q05B79
- Elsewhere: RCSB PDB 5VHD · PDBe 5VHD · UniProt Q05B79
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