MolNFT v1 · #164220 · protein
Mouse dctpase in complex with dcmp
6SQY · Dctp pyrophosphatase 1: “Mouse dctpase in complex with dcmp”. X-ray diffraction, 2 ligands (DCM, MG), 3 pockets (best druggability 0.39). MolNFT v1 #164220 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6SQY
- Type
- protein
- Length
- 227 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dctp pyrophosphatase 1
- EC
- 3.6.1.12
- UniProt
- Q9QY93
- Ligands
- DCM, MG
- Pockets
- 3 · best druggability 0.39
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dctp pyrophosphatase 1 (EC 3.6.1.12) | protein | 114 | 71% helix, 0% strand | Q9QY93 |
| D | Dctp pyrophosphatase 1 (EC 3.6.1.12) | protein | 113 | 69% helix, 0% strand | Q9QY93 |
Ligands and binding sites
- DCM · 2'-deoxycytidine-5'-monophosphate · ligand · 2 copies · chains A, D
- MG · Magnesium ion · metal · 2 copies · chains A, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.39 | 0.80 | 12 | empty |
| 2 | 71 | 0.37 | 0.77 | 13 | empty |
| 3 | 50 | 0.27 | 0.73 | 12 | DCM |
Interfaces
1 interface between chains.
- A–D · 757 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
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 Q9QY93
- Elsewhere: RCSB PDB 6SQY · PDBe 6SQY · UniProt Q9QY93
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.