ISDA

Deposition Date 2007-04-01

Release Date 2007-06-12

Last Version Date 2024-11-06

Entry Detail

PDB ID:

2PE1

Keywords:

TRANSFERASE

Title:

CRYSTAL STRUCTURE OF HUMAN PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1 (PDK1) {2-Oxo-3-[1-(1H-pyrrol-2-yl)-eth-(Z)-ylidene]-2,3-dihydro-1H-indol-5-yl}-urea {BX-517} COMPLEX

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

unidentified baculovirus

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.14 Å

R-Value Free:

0.28

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
Chain IDs:A
Chain Length:286
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:O15530 Pfam ID:PF00069 EC:2.7.11.1

Modified Residue

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

Ligand Molecules

517

GOL

SO4

Primary Citation

Indolinone based phosphoinositide-dependent kinase-1 (PDK1) inhibitors. Part 1: Design, synthesis and biological activity.

Islam, I, Bryant, J, Chou, Y.L, Kochanny, M.J, Lee, W, Phillips, G.B, Yu, H, Adler, M, Whitlow, M, Ho, E, Lentz, D, Polokoff, M.A, Subramanyam, B, Wu, J.M, Zhu, D, Feldman, R.I, Arnaiz, D.O, Islam, I, Brown, G, Bryant, J, Hrvatin, P, Kochanny, M.J, Phillips, G.B, Yuan, S, Adler, M, Whitlow, M, Lentz, D, Polokoff, M.A, Wu, J, Shen, J, Walters, J, Ho, E, Subramanyam, B, Zhu, D, Feldman, R.I, Arnaiz, D.O, Feldman, R.I, Wu, J.M, Polokoff, M.A, Kochanny, M.J, Dinter, H, Zhu, D, Biroc, S.L, Alicke, B, Bryant, J, Yuan, S, Buckman, B.O, Lentz, D, Ferrer, M, Whitlow, M, Adler, M, Finster, S, Chang, Z, Arnaiz, D.O, Biondi, R.M, Komander, D, Thomas, C.C, Lizcano, J.M, Deak, M, Alessi, D.R, Van Aalten, D.M.F.Show

Bioorg.Med.Chem.Lett. 17 3814 3818 (2007)

PMID: 17531483 DOI: 10.1016/j.bmcl.2007.04.071

Abstact

HTS screening identified 1 with micromolar inhibitory activity against PDK1. Optimization of 1 afforded 4i (BX-517) which has single-digit nanomolar activity against PDK1 and excellent selectivity against PKA.

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Primary Citation of related structures