MolNFT v1 · #87501 · protein
PKA-S6K1 chimera with compound 21E (CCT239066) bound
4C38 · Camp-dependent protein kinase catalytic subunit alpha: “PKA-S6K1 chimera with compound 21E (CCT239066) bound”. X-ray diffraction, 1 ligand (VUP), 5 pockets (best druggability 0.79). MolNFT v1 #87501 on GenesisL1: 3D structure…
- PDB
- 4C38
- Type
- protein
- Length
- 356 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camp-dependent protein kinase catalytic subunit alpha; Camp-dependent protein kinase…
- EC
- 2.7.11.11
- UniProt
- P00517
- Ligands
- VUP
- Pockets
- 5 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Camp-dependent protein kinase catalytic subunit alpha (EC 2.7.11.11) | protein | 337 | 36% helix, 16% strand | P00517 |
| I | Camp-dependent protein kinase inhibitor peptide | protein | 19 | 32% helix, 0% strand | — |
Ligands and binding sites
- VUP · 4-(1-ethyl-6-methyl-imidazo[4,5-c]pyridin-2-yl)-1,2,5-oxadiazol-3-amine · ligand · chains A
- MOH · Methanol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 232 | 0.79 | 0.92 | 40 | VUP |
| 2 | 77 | 0.48 | 0.82 | 13 | empty |
| 3 | 117 | 0.41 | 0.76 | 23 | empty |
| 4 | 56 | 0.30 | 0.75 | 10 | empty |
| 5 | 52 | 0.29 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–I · 967 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (phosphorylation).
Compared structures
- 4C38 · PKA-S6K1 Chimera with compound 21e (CCT239066) bound · the same entry in another collection · 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 P00517
- Elsewhere: RCSB PDB 4C38 · PDBe 4C38 · UniProt P00517
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