› 3hrc

X-ray diffraction
1.91Å resolution

Crystal structure of a mutant of human PDK1 Kinase domain in complex with ATP

Released:
DOI: 10.2210/pdb3hrc/pdb
PDB entry 3hrc coloured by chain, front view.
PDB entry 3hrc coloured by chain, side view.
PDB entry 3hrc coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure and allosteric effects of low-molecular-weight activators on the protein kinase PDK1.
Hindie V, Stroba A, Zhang H, Lopez-Garcia LA, Idrissova L, Zeuzem S, Hirschberg D, Schaeffer F, Jørgensen TJ, Engel M, Alzari PM, Biondi RM
Nat Chem Biol 5 758-64 (2009)
PMID: 19718043

Function and Biology Details

Reaction catalysed: 
ATP + a protein = ADP + a phosphoprotein
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-127511 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
3-phosphoinositide-dependent protein kinase 1 Chain: A
Molecule details ›
Chain: A
Length: 311 amino acids
Theoretical weight: 35.39 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O15530 (Residues: 50-359; Coverage: 56%)
Gene names: PDK1, PDPK1
Sequence domains: Protein kinase domain
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand ATP 1 x ATP
1 modified residue:
Ligand SEP 1 x SEP

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: C2
Unit cell:
a: 148.08Å b: 43.79Å c: 47.49Å
α: 90° β: 101.5° γ: 90°
R-values:
R R work R free
0.182 0.181 0.207
Expression system: Spodoptera frugiperda

Quick links

Citations

19 review citations

The nuts and bolts of AGC protein kinases.
Pearce et al. (2010)
18 more

7 mentions without citation

The chemical diversity and structure-based discovery of allosteric modulators for the PIF-pocket of protein kinase PDK1.
Xu et al. (2019)
6 more