› 2ya3

X-ray diffraction
2.51Å resolution

STRUCTURE OF THE REGULATORY FRAGMENT OF MAMMALIAN AMPK IN COMPLEX WITH COUMARIN ADP

Released:
DOI: 10.2210/pdb2ya3/pdb
PDB entry 2ya3 coloured by chain, front view.
PDB entry 2ya3 coloured by chain, side view.
PDB entry 2ya3 coloured by chain, top view.
Source organisms:
Primary publication:
Structure of mammalian AMPK and its regulation by ADP.
Xiao B, Sanders MJ, Underwood E, Heath R, Mayer FV, Carmena D, Jing C, Walker PA, Eccleston JF, Haire LF, Saiu P, Howell SA, Aasland R, Martin SR, Carling D, Gamblin SJ
Nature 472 230-3 (2011)
PMID: 21399626

Function and Biology Details

Reactions catalysed: 
ATP + a protein = ADP + a phosphoprotein
ATP + [tau protein] = ADP + [tau protein] phosphate
ATP + [hydroxymethylglutaryl-CoA reductase (NADPH)] = ADP + [hydroxymethylglutaryl-CoA reductase (NADPH)] phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129099 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
5'-AMP-activated protein kinase catalytic subunit alpha-1 Chain: A
Molecule details ›
Chain: A
Length: 173 amino acids
Theoretical weight: 19.49 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P54645 (Residues: 407-555; Coverage: 27%)
Gene names: Ampk1, Prkaa1
Sequence domains: Adenylate sensor of SNF1-like protein kinase
Structure domains: Kinase associated domain 1, KA1
5'-AMP-activated protein kinase subunit beta-2 Chain: B
Molecule details ›
Chain: B
Length: 87 amino acids
Theoretical weight: 10.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O43741 (Residues: 187-272; Coverage: 32%)
Gene name: PRKAB2
Sequence domains: 5'-AMP-activated protein kinase beta subunit, interaction domain
5'-AMP-activated protein kinase subunit gamma-1 Chain: E
Molecule details ›
Chain: E
Length: 330 amino acids
Theoretical weight: 37.43 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P80385 (Residues: 1-330; Coverage: 100%)
Gene name: Prkag1
Sequence domains: CBS domain

Ligands and Environments

2 bound ligands:
Ligand J7V 2 x J7V
Ligand AMP 1 x AMP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P212121
Unit cell:
a: 48.943Å b: 124.06Å c: 125.315Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.223 0.263
Expression system: Escherichia coli

Quick links

Citations

207 review citations

AMPK: a nutrient and energy sensor that maintains energy homeostasis.
Hardie et al. (2012)
206 more

3 mentions without citation

Isoquercetin Improves Hepatic Lipid Accumulation by Activating AMPK Pathway and Suppressing TGF-β Signaling on an HFD-Induced Nonalcoholic Fatty Liver Disease Rat Model.
Qin et al. (2018)
2 more