MDK-5561 HCl

    WARNING: This product is for research use only, not for human or veterinary use.

MedKoo CAT#: 525696

CAS#: 2109805-56-1

Description: MDK-5561, also known as CLK-IN-T3, is a novel highly selective, stable CLK inhibitor with high specificity to CLK1-3 protein isoforms. CLK-IN-T3 (MDK-5561) has CAS#2109805-56-1. The last 4 digits of the CAS# is used for name for the convenience of scientific communications. T3-CLK is a pan-CLK inhibitor, T3-CLK as well as the negative control T3-CLK-N have been developed in collaboration with Takeda 3 (5). T3-CLK is a potent inhibitor of CLK1, CLK2 and CLK3 with IC50 of 0.67/15/110 nM, respectively. T3-CLK is >30 fold selective against the closest off targets DYRK1A and DYRK1B with an IC50 of 260 nM and 230 nM, respectively in cellular assays. T3-CLK is non-toxic in cells and inhibits the phosphorylation of SRSF in HeLa cells in a time and dose dependent manner. (

Chemical Structure

MDK-5561 HCl
CAS# 2109805-56-1

Theoretical Analysis

MedKoo Cat#: 525696
Name: MDK-5561 HCl
CAS#: 2109805-56-1
Chemical Formula: C28H31ClN6O2
Exact Mass: 482.243
Molecular Weight: 519.046
Elemental Analysis: C, 64.79; H, 6.02; Cl, 6.83; N, 16.19; O, 6.16

Price and Availability

This product is not in stock, which may be available by custom synthesis. For cost-effective reason, minimum order is 1g (price is usually high, lead time is 2~3 months, depending on the technical challenge). Quote less than 1g will not be provided. To request quote, please email to sales or click below button.
Note: Price will be listed if it is available in the future.

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Synonym: T3, CLK Inhibitor T3; T3-CLK; MDK-5561; MDK 5561; MDK5561; MDK-5561 HCl; MDK-5561 hydrochloride

IUPAC/Chemical Name: 4-(2-Methyl-1-(4-methylpiperazin-1-yl)-1-oxopropan-2-yl)-N-(6-(pyridin-4-yl)imidazo[1,2-a]pyridin-2-yl)benzamide hydrochloride


InChi Code: InChI=1S/C28H30N6O2.ClH/c1-28(2,27(36)33-16-14-32(3)15-17-33)23-7-4-21(5-8-23)26(35)31-24-19-34-18-22(6-9-25(34)30-24)20-10-12-29-13-11-20;/h4-13,18-19H,14-17H2,1-3H3,(H,31,35);1H

SMILES Code: O=C(NC1=CN2C=C(C3=CC=NC=C3)C=CC2=N1)C4=CC=C(C(C)(C)C(N5CCN(C)CC5)=O)C=C4.[H]Cl

Appearance: Solid powder

Purity: >98% (or refer to the Certificate of Analysis)

Shipping Condition: Shipped under ambient temperature as non-hazardous chemical. This product is stable enough for a few weeks during ordinary shipping and time spent in Customs.

Storage Condition: Dry, dark and at 0 - 4 C for short term (days to weeks) or -20 C for long term (months to years).

Solubility: Soluble in DMSO

Shelf Life: >2 years if stored properly

Drug Formulation: This drug may be formulated in DMSO

Stock Solution Storage: 0 - 4 C for short term (days to weeks), or -20 C for long term (months).

HS Tariff Code: 2934.99.9001

Preparing Stock Solutions

The following data is based on the product molecular weight 519.046 Batch specific molecular weights may vary from batch to batch due to the degree of hydration, which will affect the solvent volumes required to prepare stock solutions.

Recalculate based on batch purity %
Concentration / Solvent Volume / Mass 1 mg 5 mg 10 mg
1 mM 1.15 mL 5.76 mL 11.51 mL
5 mM 0.23 mL 1.15 mL 2.3 mL
10 mM 0.12 mL 0.58 mL 1.15 mL
50 mM 0.02 mL 0.12 mL 0.23 mL

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Additional Information

The Cdc2-like kinases (CLK) are evolutionary highly conserved dual specificity protein kinases. The CLK family consists of four members, namely CLK1, 2, 3, and 4 (1). CLKs have a highly conserved domain structure at the C-terminus, containing a signature amino acid motif EHLAMMERILG, why they are often referred to as ‘LAMMER kinases’ (2). CLKs auto-phosphorylate on serine/threonine and tyrosine residues and phosphorylate exogenous substrates on serine/threonine residues (3). They play an important role in the regulation of RNA splicing through phosphorylation of members of the serine and arginine-rich family of splicing factors (SRSF). Phosphorylation of SRSF on numerous serine residues is a prerequisite for entry of SRSF into the nucleus and for the assembly of the spliceosome (4). Being part of the splicing machinery, CLKs are often associated with the development of many pathologies, including cancer and neurodegenerative disorders. However, to date CLK-dependent RNA processing events remains poorly defined