ISDA

Deposition Date 2010-07-07

Release Date 2011-05-25

Last Version Date 2024-11-20

Entry Detail

PDB ID:

3NUY

Keywords:

TRANSFERASE

Title:

phosphoinositide-dependent kinase-1 (PDK1) with fragment17

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Baculovirus

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.10 Å

R-Value Free:

0.22

R-Value Work:

0.18

R-Value Observed:

0.18

Space Group:

P 32 2 1

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:PkB-like
Chain IDs:A
Chain Length:286
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:O15530 Pfam ID:PF00069

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
SEP	A	SER	PHOSPHOSERINE

Ligand Molecules

GOL

JPZ

SO4

Primary Citation

Aminoindazole PDK1 Inhibitors: A Case Study in Fragment-Based Drug Discovery.

Medina, J.R, Blackledge, C.W, Heerding, D.A, Campobasso, N, Ward, P, Briand, J, Wright, L, Axten, J.M.Show

ACS Med Chem Lett 1 439 442 (2010)

PMID: 24900229 DOI: 10.1021/ml100136n

Abstact

Fragment screening of phosphoinositide-dependent kinase-1 (PDK1) in a biochemical kinase assay afforded hits that were characterized and prioritized based on ligand efficiency and binding interactions with PDK1 as determined by NMR. Subsequent crystallography and follow-up screening led to the discovery of aminoindazole 19, a potent leadlike PDK1 inhibitor with high ligand efficiency. Well-defined structure-activity relationships and protein crystallography provide a basis for further elaboration and optimization of 19 as a PDK1 inhibitor.

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Protein

Chemical

Disease

Primary Citation of related structures