MolNFT v1 · #77493 · protein
Crystal structure of PTPMT1 in complex with PI(5)P
3RGQ · Protein-tyrosine phosphatase mitochondrial 1: “Crystal structure of PTPMT1 in complex with PI(5)P”. X-ray diffraction, 1 ligand (5P5), 1 pocket (best druggability 0.33). MolNFT v1 #77493 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3RGQ
- Type
- protein
- Length
- 156 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein-tyrosine phosphatase mitochondrial 1
- EC
- 3.1.3.16, 3.1.3.48
- UniProt
- Q66GT5
- Ligands
- 5P5
- Pockets
- 1 · best druggability 0.33
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein-tyrosine phosphatase mitochondrial 1 (EC 3.1.3.16, 3.1.3.48) | protein | 156 | 51% helix, 14% strand | Q66GT5 |
Ligands and binding sites
- 5P5 · (2R)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,4,6-tetrahydroxy-5-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dibutanoate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 52 | 0.33 | 0.78 | 18 | empty |
Compared structures
- 3RGQ · Crystal Structure of PTPMT1 in complex with PI(5)P · the same entry in another collection · chain A against A, TM-score 1.00
- Q66GT5 · AlphaFold monomer V2.0 prediction for phosphatidylglycerophosphatase and protein-tyrosine… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q66GT5
- Elsewhere: RCSB PDB 3RGQ · PDBe 3RGQ · UniProt Q66GT5
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