MolNFT v1 · #108391 · protein
Crystal structure of human tankyrase 2 in complex with 1-methyl-7- phenyl-1,2,3,4,5,6-hexahydro-1,6- naphthyridin-5-one
4W5I · Tankyrase-2: “Crystal structure of human tankyrase 2 in complex with 1-methyl-7- phenyl-1,2,3,4,5,6-hexahydro-1,6…”. X-ray diffraction, 3 ligands (3GX, ZN, SO4), 4 pockets (best druggability 0.80). MolNFT v1 #108391 on GenesisL1: 3D…
- PDB
- 4W5I
- Type
- protein
- Length
- 417 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tankyrase-2
- EC
- 2.4.2.30
- UniProt
- Q9H2K2
- Ligands
- 3GX, ZN, SO4
- Pockets
- 4 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 24% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tankyrase-2 (EC 2.4.2.30) | protein | 208 | 24% helix, 30% strand | Q9H2K2 |
| B | Tankyrase-2 (EC 2.4.2.30) | protein | 209 | 24% helix, 30% strand | Q9H2K2 |
Ligands and binding sites
- 3GX · 1-methyl-7-phenyl-2,3,4,6-tetrahydro-1,6-naphthyridin-5(1H)-one · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 4 copies · chains A, B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 433 | 0.80 | 0.88 | 63 | SO4, 3GX |
| 2 | 223 | 0.64 | 0.83 | 36 | SO4, 3GX |
| 3 | 135 | 0.52 | 0.80 | 19 | empty |
| 4 | 107 | 0.37 | 0.74 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 616 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 4W5I · Crystal structure of human tankyrase 2 in complex with… · 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 Q9H2K2
- Elsewhere: RCSB PDB 4W5I · PDBe 4W5I · UniProt Q9H2K2
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