Research workbench
PKA three fold mutant model of rho-kinase with Y-27632
Analyse PKA three fold mutant model of rho-kinase with Y-27632 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GNJ
- Type
- protein
- Length
- 357 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camp-dependent protein kinase, alpha-catalytic subunit; Camp-dependent protein kinase…
- EC
- 2.7.11.11
- UniProt
- P00517, P61926
- Ligands
- Y27
- Pockets
- 7 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Camp-dependent protein kinase, alpha-catalytic subunit (EC 2.7.11.11) | protein | 337 | 37% helix, 16% strand | P00517 |
| I | Camp-dependent protein kinase inhibitor alpha | protein | 20 | 35% helix, 5% strand | P61926 |
Ligands and binding sites
- Y27 · (R)-trans-4-(1-aminoethyl)-N-(4-pyridyl) cyclohexanecarboxamide · ligand · chains A
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 | 167 | 0.79 | 0.94 | 31 | Y27 |
| 2 | 67 | 0.48 | 0.83 | 12 | empty |
| 3 | 129 | 0.47 | 0.78 | 31 | empty |
| 4 | 68 | 0.32 | 0.75 | 14 | empty |
| 5 | 50 | 0.29 | 0.76 | 19 | empty |
Interfaces
1 interface between chains.
- A–I · 1089 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 2GNJ · PKA three fold mutant model of Rho-kinase with Y-27632 · the same entry in another collection · chain A against A, TM-score 1.00
- P61926 · AlphaFold monomer V2.0 prediction for camp-dependent protein kinase inhibitor alpha… · a predicted model of the same protein · chain I against A, TM-score 0.40
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 P00517
- Every structure of UniProt P61926
- Elsewhere: RCSB PDB 2GNJ · PDBe 2GNJ · UniProt P00517 · UniProt P61926
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