Research workbench
Crystal structure of apoenzyme camp-dependent protein kinase catalytic subunit
Analyse Crystal structure of apoenzyme camp-dependent protein kinase catalytic subunit in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1J3H
- Type
- protein
- Length
- 662 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camp-dependent protein kinase, alpha-catalytic subunit
- EC
- 2.7.1.37
- UniProt
- P05132
- Pockets
- 7 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Camp-dependent protein kinase, alpha-catalytic subunit (EC 2.7.1.37) | protein | 332 | 37% helix, 16% strand | P05132 |
| B | Camp-dependent protein kinase, alpha-catalytic subunit (EC 2.7.1.37) | protein | 330 | 39% helix, 13% strand | P05132 |
Ligands and binding sites
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 511 | 0.64 | 0.76 | 45 | empty |
| 2 | 363 | 0.62 | 0.78 | 30 | empty |
| 3 | 96 | 0.48 | 0.80 | 15 | MPD |
| 4 | 105 | 0.44 | 0.77 | 12 | MPD |
| 5 | 147 | 0.38 | 0.73 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 33 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (phosphorylation, artifact).
Compared structures
- 1J3H · Crystal structure of apoenzyme cAMP-dependent protein kinase catalytic subunit · the same entry in another collection · chain A against A, TM-score 1.00
- P05132 · AlphaFold monomer V2.0 prediction for camp-dependent protein kinase catalytic subunit… · a predicted model of the same protein · chain B against A, TM-score 0.96
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 P05132
- Elsewhere: RCSB PDB 1J3H · PDBe 1J3H · UniProt P05132
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