MolNFT v1 · #77740 · protein
Crystal structure of human RSK1 C-terminal kinase domain
3RNY · Ribosomal protein S6 kinase alpha-1: “Crystal structure of human RSK1 C-terminal kinase domain”. X-ray diffraction, 1 ligand (NA), 7 pockets (best druggability 0.51). MolNFT v1 #77740 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3RNY
- Type
- protein
- Length
- 535 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosomal protein S6 kinase alpha-1
- EC
- 2.7.11.1
- UniProt
- Q15418
- Ligands
- NA
- Pockets
- 7 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosomal protein S6 kinase alpha-1 (EC 2.7.11.1) | protein | 264 | 46% helix, 10% strand | Q15418 |
| B | Ribosomal protein S6 kinase alpha-1 (EC 2.7.11.1) | protein | 271 | 43% helix, 14% strand | Q15418 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 132 | 0.51 | 0.80 | 25 | empty |
| 2 | 144 | 0.50 | 0.78 | 20 | empty |
| 3 | 123 | 0.48 | 0.79 | 28 | empty |
| 4 | 120 | 0.45 | 0.78 | 23 | empty |
| 5 | 109 | 0.39 | 0.75 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 733 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 3RNY · Crystal structure of human RSK1 C-terminal kinase domain · the same entry in another collection · chain A against A, TM-score 1.00
- Q15418 · AlphaFold monomer V2.0 prediction for ribosomal protein S6 kinase alpha-1 (Q15418) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 Q15418
- Elsewhere: RCSB PDB 3RNY · PDBe 3RNY · UniProt Q15418
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