Research workbench
Crystal structure of SCP1 phosphatase D206A mutant with trapped inorganic phosphate
Analyse Crystal structure of SCP1 phosphatase D206A mutant with trapped inorganic… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3L0C
- Type
- protein
- Length
- 358 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Carboxy-terminal domain RNA polymerase II polypeptide a small phosphatase 1
- EC
- 3.1.3.16
- UniProt
- Q9GZU7
- Ligands
- MG, PO4
- Pockets
- 4 · best druggability 0.42
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Carboxy-terminal domain RNA polymerase II polypeptide a small phosphatase 1 (EC 3.1.3.16) | protein | 179 | 33% helix, 27% strand | Q9GZU7 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 94 | 0.42 | 0.78 | 19 | empty |
| 2 | 150 | 0.41 | 0.74 | 25 | MG, PO4 |
| 3 | 150 | 0.41 | 0.74 | 25 | PO4 |
| 4 | 64 | 0.36 | 0.78 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 437 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 3L0C · Crystal structure of SCP1 phosphatase D206A mutant with trapped inorganic phosphate · the same entry in another collection · chain A against A, TM-score 1.00
- Q9GZU7 · AlphaFold monomer V2.0 prediction for carboxy-terminal domain RNA polymerase II… · 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 Q9GZU7
- Elsewhere: RCSB PDB 3L0C · PDBe 3L0C · UniProt Q9GZU7
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