ISDA

Deposition Date 2010-12-09

Release Date 2011-04-20

Last Version Date 2024-10-09

Entry Detail

PDB ID:

3PWY

Keywords:

TRANSFERASE/TRANSFERASE INHIBITOR

Title:

Crystal structure of an extender (SPD28345)-modified human PDK1 complex 2

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Spodoptera frugiperda

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

3.50 Å

R-Value Free:

0.27

R-Value Work:

0.22

R-Value Observed:

0.22

Space Group:

P 32 2 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:3-phosphoinositide-dependent protein kinase 1
Gene (Uniprot):PDPK1
Mutations:E166C, C260S
Chain IDs:A
Chain Length:311
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:O15530 Pfam ID:PF00069 EC:2.7.11.1

Primary Citation

Discovery of a potent and highly selective PDK1 inhibitor via fragment-based drug discovery.

Erlanson, D.A, Arndt, J.W, Cancilla, M.T, Cao, K, Elling, R.A, English, N, Friedman, J, Hansen, S.K, Hession, C, Joseph, I, Kumaravel, G, Lee, W.C, Lind, K.E, McDowell, R.S, Miatkowski, K, Nguyen, C, Nguyen, T.B, Park, S, Pathan, N, Penny, D.M, Romanowski, M.J, Scott, D, Silvian, L, Simmons, R.L, Tangonan, B.T, Yang, W, Sun, L.Show

Bioorg.Med.Chem.Lett. 21 3078 3083 (2011)

PMID: 21459573 DOI: 10.1016/j.bmcl.2011.03.032

Abstact

We report the use of a fragment-based lead discovery method, Tethering with extenders, to discover a pyridinone fragment that binds in an adaptive site of the protein PDK1. With subsequent medicinal chemistry, this led to the discovery of a potent and highly selective inhibitor of PDK1, which binds in the 'DFG-out' conformation.

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Primary Citation of related structures