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The structure of the saccharomyces cerevisiae sr protein kinase, SKY1P, with bound ATP
Analyse The structure of the saccharomyces cerevisiae sr protein kinase, SKY1P, with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Q97
- Type
- protein
- Length
- 712 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sr protein kinase
- EC
- 2.7.1.-
- UniProt
- Q03656
- Ligands
- ATP, ADN, MG, NI, SO4
- Pockets
- 10 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sr protein kinase (EC 2.7.1.-) | protein | 351 | 39% helix, 19% strand | Q03656 |
| B | Sr protein kinase (EC 2.7.1.-) | protein | 361 | 38% helix, 19% strand | Q03656 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · chains A
- ADN · Adenosine · ligand · chains B
- MG · Magnesium ion · metal · 2 copies · chains A
- NI · Nickel (II) ion · metal · chains B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 291 | 0.63 | 0.80 | 34 | MG, ATP |
| 2 | 295 | 0.59 | 0.77 | 29 | ADN |
| 3 | 152 | 0.51 | 0.78 | 17 | empty |
| 4 | 79 | 0.50 | 0.84 | 24 | empty |
| 5 | 74 | 0.41 | 0.79 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 619 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 1Q97 · The structure of the Saccharomyces cerevisiae SR protein kinase, Sky1p, with bound ATP · the same entry in another collection · chain A against A, TM-score 1.00
- Q03656 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase SKY1 (Q03656) · a predicted model of the same protein · chain B 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 Q03656
- Elsewhere: RCSB PDB 1Q97 · PDBe 1Q97 · UniProt Q03656
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