ISDA

Entry Detail

PDB ID:

5DFP

Keywords:

TRANSFERASE/TRANSFERASE INHIBITOR

Title:

Crystal structure of PAK1 in complex with an inhibitor compound FRAX1036

Biological Source:

Source Organism:

Homo sapiens

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2015-08-27

Release Date:

2016-01-27

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.20 Å

R-Value Free:

0.24

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

C 2 2 21

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:Serine/threonine-protein kinase PAK 1
Mutations:K299R
Chain IDs:A
Chain Length:297
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q13153 Pfam ID:PF00069 EC:2.7.11.1

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
TPO	A	THR	modified residue

Ligand Molecules

59U

DMS

Primary Citation

Design of Selective PAK1 Inhibitor G-5555: Improving Properties by Employing an Unorthodox Low-pK a Polar Moiety.

Ndubaku, C.O, Crawford, J.J, Drobnick, J, Aliagas, I, Campbell, D, Dong, P, Dornan, L.M, Duron, S, Epler, J, Gazzard, L, Heise, C.E, Hoeflich, K.P, Jakubiak, D, La, H, Lee, W, Lin, B, Lyssikatos, J.P, Maksimoska, J, Marmorstein, R, Murray, L.J, O'Brien, T, Oh, A, Ramaswamy, S, Wang, W, Zhao, X, Zhong, Y, Blackwood, E, Rudolph, J.Show

Acs Med.Chem.Lett. 6 1241 1246 (2015)

PMID: 26713112 DOI: 10.1021/acsmedchemlett.5b00398

Abstact

Signaling pathways intersecting with the p21-activated kinases (PAKs) play important roles in tumorigenesis and cancer progression. By recognizing that the limitations of FRAX1036 (1) were chiefly associated with the highly basic amine it contained, we devised a mitigation strategy to address several issues such as hERG activity. The 5-amino-1,3-dioxanyl moiety was identified as an effective means of reducing pK a and logP simultaneously. When positioned properly within the scaffold, this group conferred several benefits including potency, pharmacokinetics, and selectivity. Mouse xenograft PK/PD studies were carried out using an advanced compound, G-5555 (12), derived from this approach. These studies concluded that dose-dependent pathway modulation was achievable and paves the way for further in vivo investigations of PAK1 function in cancer and other diseases.

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Primary Citation of related structures