Research workbench
Structure of protein SERINE/THREONINE phosphatase from saccharomyces cerevisiae with similarity to human phosphatase PP5
Analyse Structure of protein SERINE/THREONINE phosphatase from saccharomyces cerevisiae… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ICF
- Type
- protein
- Length
- 631 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein phosphatase T
- EC
- 3.1.3.16
- UniProt
- P53043
- Ligands
- FE, NA, PO4, CL
- Pockets
- 2 · best druggability 0.41
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SERINE/THREONINE-protein phosphatase T (EC 3.1.3.16) | protein | 316 | 34% helix, 20% strand | P53043 |
| B | SERINE/THREONINE-protein phosphatase T (EC 3.1.3.16) | protein | 315 | 35% helix, 20% strand | P53043 |
Ligands and binding sites
- FE · Fe (III) ion · metal · 4 copies · chains A, B
- NA · Sodium ion · metal · chains A, B
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
- CL · Chloride ion · ion
- EDO · 1,2-ethanediol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.41 | 0.75 | 13 | empty |
| 2 | 116 | 0.39 | 0.75 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 820 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 22 modified (engineered).
Compared structures
- 3ICF · Structure of Protein serine/threonine phosphatase from Saccharomyces cerevisiae with… · the same entry in another collection · chain A against A, TM-score 1.00
- P53043 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein phosphatase T (P53043) · a predicted model of the same protein · chain A 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 P53043
- Elsewhere: RCSB PDB 3ICF · PDBe 3ICF · UniProt P53043
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