Research workbench
Catalytic subunit of camp-dependent protein kinase a in complex with RYR2 peptide (2799-2810)
Analyse Catalytic subunit of camp-dependent protein kinase a in complex with RYR2… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MM5
- Type
- protein
- Length
- 350 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camp-dependent protein kinase catalytic subunit alpha; Ryanodine receptor 2
- EC
- 2.7.11.11
- UniProt
- P05132, E9Q401
- Ligands
- ANP, MG
- Pockets
- 6 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Camp-dependent protein kinase catalytic subunit alpha (EC 2.7.11.11) | protein | 338 | 37% helix, 16% strand | P05132 |
| C | Ryanodine receptor 2 | protein | 12 | 0% helix, 17% strand | E9Q401 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains E, C
- MG · Magnesium ion · metal · chains E
- EDO · 1,2-ethanediol · additive · chains E, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 343 | 0.78 | 0.88 | 42 | MG, ANP |
| 2 | 101 | 0.46 | 0.80 | 16 | empty |
| 3 | 70 | 0.45 | 0.81 | 13 | empty |
| 4 | 79 | 0.34 | 0.75 | 16 | empty |
| 5 | 80 | 0.32 | 0.74 | 20 | empty |
Interfaces
1 interface between chains.
- E–C · 744 Ų buried · 23 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 6MM5 · Catalytic subunit of cAMP-dependent protein kinase A in complex with RyR2 peptide… · the same entry in another collection · chain E against E, 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 P05132
- Every structure of UniProt E9Q401
- Elsewhere: RCSB PDB 6MM5 · PDBe 6MM5 · UniProt P05132 · UniProt E9Q401
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