MolNFT v1 · #14677 · protein
Crystal structure analysis of deoxyribonucleotidase
1MH9: “Crystal structure analysis of deoxyribonucleotidase”. X-ray diffraction, 2 ligands (MG, PO4), 2 pockets (best druggability 0.72). MolNFT v1 #14677 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1MH9
- Type
- protein
- Length
- 194 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Deoxyribonucleotidase
- EC
- 3.1.3.5
- UniProt
- Q9NPB1
- Ligands
- MG, PO4
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Deoxyribonucleotidase (EC 3.1.3.5) | protein | 194 | 36% helix, 15% strand | Q9NPB1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 292 | 0.72 | 0.86 | 30 | PO4, MG |
| 2 | 57 | 0.33 | 0.76 | 19 | empty |
Compared structures
- 1MH9 · Crystal Structure Analysis of deoxyribonucleotidase · the same entry in another collection · chain A against A, TM-score 1.00
- Q9NPB1 · AlphaFold monomer V2.0 prediction for 5'(3')-deoxyribonucleotidase, mitochondrial (Q9NPB1) · a predicted model of the same protein · 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 Q9NPB1
- Elsewhere: RCSB PDB 1MH9 · PDBe 1MH9 · UniProt Q9NPB1
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