› 2qrd

X-ray diffraction
2.41Å resolution

Crystal Structure of the Adenylate Sensor from AMP-activated Protein Kinase in complex with ADP and ATP

Released:
DOI: 10.2210/pdb2qrd/pdb
PDB entry 2qrd coloured by chain, front view.
PDB entry 2qrd coloured by chain, side view.
PDB entry 2qrd coloured by chain, top view.
Source organism: Schizosaccharomyces pombe
Primary publication:
Structural insight into AMPK regulation: ADP comes into play.
Jin X, Townley R, Shapiro L
Structure 15 1285-95 (2007)
PMID: 17937917

Function and Biology Details

Reaction catalysed: 
ATP + a protein = ADP + a phosphoprotein
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assemblies composition:
hetero trimer (preferred)
hetero hexamer
PDBe Complex ID:
PDB-CPX-130785 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
SNF1-like protein kinase ssp2 Chains: A, C
Molecule details ›
Chains: A, C
Length: 137 amino acids
Theoretical weight: 15.9 KDa
Source organism: Schizosaccharomyces pombe
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O74536 (Residues: 440-576; Coverage: 24%)
Gene names: SPCC74.03c, ssp2
Sequence domains: Adenylate sensor of SNF1-like protein kinase
Structure domains: Kinase associated domain 1, KA1
5'-AMP-activated protein kinase subunit beta Chains: B, D
Molecule details ›
Chains: B, D
Length: 97 amino acids
Theoretical weight: 10.87 KDa
Source organism: Schizosaccharomyces pombe
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P78789 (Residues: 203-298; Coverage: 32%)
Gene names: SPCC1919.03c, amk2
Sequence domains: 5'-AMP-activated protein kinase beta subunit, interaction domain
Structure domains: N-terminal domain of TfIIb
5'-AMP-activated protein kinase subunit gamma Chains: E, G
Molecule details ›
Chains: E, G
Length: 334 amino acids
Theoretical weight: 37.44 KDa
Source organism: Schizosaccharomyces pombe
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q10343 (Residues: 3-334; Coverage: 99%)
Gene names: SPAC1556.08c, SPAC1F12.01c, cbs2
Sequence domains: CBS domain
Structure domains: CBS-domain

Ligands and Environments

2 bound ligands:
Ligand ADP 2 x ADP
Ligand ATP 4 x ATP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: C2
Unit cell:
a: 168.263Å b: 78.365Å c: 109.014Å
α: 90° β: 124.18° γ: 90°
R-values:
R R work R free
0.199 0.188 0.262
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

19 review citations

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

1 mention without citation

An Integrated Database for Complex Protein Structure Modeling.
Wang et al. (2008)