ISDA: 5M4P

Deposition Date 2016-10-18

Release Date 2017-02-22

Last Version Date 2024-01-17

Entry Detail

PDB ID:

5M4P

Keywords:

TRANSFERASE

Title:

Application of Off-Rate Screening in the Identification of Novel Pan-Isoform Inhibitors of Pyruvate Dehydrogenase Kinase

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)

Expression System(s):

Escherichia coli bl21(de3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.30 Å

R-Value Free:

0.25

R-Value Work:

0.19

R-Value Observed:

0.20

Space Group:

P 64

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial
Gene (Uniprot):PDK2
Chain IDs:A
Chain Length:408
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q15119 Pfam ID:PF10436, PF02518 EC:2.7.11.2

Ligand Molecules

7FE

TF3

Primary Citation

Application of Off-Rate Screening in the Identification of Novel Pan-Isoform Inhibitors of Pyruvate Dehydrogenase Kinase.

Brough, P.A, Baker, L, Bedford, S, Brown, K, Chavda, S, Chell, V, D'Alessandro, J, Davies, N.G, Davis, B, Le Strat, L, Macias, A.T, Maddox, D, Mahon, P.C, Massey, A.J, Matassova, N, McKenna, S, Meissner, J.W, Moore, J.D, Murray, J.B, Northfield, C.J, Parry, C, Parsons, R, Roughley, S.D, Shaw, T, Simmonite, H, Stokes, S, Surgenor, A, Stefaniak, E, Robertson, A, Wang, Y, Webb, P, Whitehead, N, Wood, M.Show

J. Med. Chem. 60 2271 2286 (2017)

PMID: 28199108 DOI: 10.1021/acs.jmedchem.6b01478

Abstact

Libraries of nonpurified resorcinol amide derivatives were screened by surface plasmon resonance (SPR) to determine the binding dissociation constant (off-rate, kd) for compounds binding to the pyruvate dehydrogenase kinase (PDHK) enzyme. Parallel off-rate measurements against HSP90 and application of structure-based drug design enabled rapid hit to lead progression in a program to identify pan-isoform ATP-competitive inhibitors of PDHK. Lead optimization identified selective sub-100-nM inhibitors of the enzyme which significantly reduced phosphorylation of the E1α subunit in the PC3 cancer cell line in vitro.

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Primary Citation of related structures

Abstact

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