| Size | Price | Stock | Qty |
|---|---|---|---|
| 5mg |
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| 10mg |
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| 25mg |
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| 50mg |
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| 100mg |
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| 250mg | |||
| Other Sizes |
Purity: ≥98%
| Targets |
RNA 2'-hydroxyl group [1]
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|---|---|
| ln Vitro |
In vitro transcribed 5S rRNA from mouse embryonic stem cells showed similar quantitative patterns of 2'-hydroxyl acylation with 5S rRNA modificator (CAS#: 1415238-77-5) compared to NMIA, with correlation coefficient R^2=0.93 [1].
The hydrolysis half-life of 5S rRNA modificator (CAS#: 1415238-77-5) in water is 33 minutes, whereas FAI has 73 minutes and NMIA 4 minutes [1]. Time-course of ATP modification showed that 5S rRNA modificator (CAS#: 1415238-77-5) acylation proceeds over time, with higher reactivity than FAI [1]. In vitro modification of 5S rRNA required probe concentrations above 20 mM to detect signals; at 13 mM no modification was observed [1]. |
| Cell Assay |
Cultured mouse embryonic stem cells were treated with 5S rRNA modificator (CAS#: 1415238-77-5) at 100 mM in aqueous buffer for 1 to 30 minutes. The reaction was quenched by addition of beta-mercaptoethanol or RNA extraction. Reverse transcription revealed blocks corresponding to modified residues. Modification was detectable as early as 1 minute and plateaued by 15 minutes. Cells remained attached, morphologically normal, and trypan blue negative after 30 minutes treatment [1].
5S rRNA modificator (CAS#: 1415238-77-5) also modified 5S rRNA in cultured human cancer cells, Drosophila S2 cells, yeast (Saccharomyces cerevisiae), and E. coli, indicating broad cell permeability [1]. Nuclear localized low-abundance RNAs were also modified, suggesting the reagent enters the nucleus [1]. In yeast cells, comparison of in vivo vs in vitro modification revealed hyperreactivity at residues C72 and C73 in Loop E, which correspond to high b-factor in crystal structure [1]. |
| ADME/Pharmacokinetics |
Hydrolysis half-life (t1/2) in water: 33 minutes for 5S rRNA modificator (CAS#: 1415238-77-5) [1].
The reaction can be terminated by addition of beta-mercaptoethanol or RNA extraction [1]. |
| Toxicity/Toxicokinetics |
Mouse embryonic stem cells treated with 100 mM 5S rRNA modificator (CAS#: 1415238-77-5) for up to 30 minutes showed normal morphology, remained attached to culture vessels, and were not stained by trypan blue, indicating lack of acute cytotoxicity [1].
Longer-term cytotoxicity requires careful evaluation [1]. |
| References |
: RNA SHAPE analysis in living cells. Nat Chem Biol. 2013 Jan;9(1):18-20.; Fairley JA, Mitchell LE, Berg T, Kenneth NS, von Schubert C, Silljé HH, Medema RH, Nigg EA, White RJ. Direct regulation of tRNA and 5S rRNA gene transcription by Polo-like kinase 1. Mol Cell. 2012 Feb 24;45(4):541-52. doi: 10.1016/j.molcel.2011.11.030. Erratum in: Mol Cell. 2012 Jul 13;47(1):148-9. PubMed PMID: 22281053.
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| Additional Infomation |
5S rRNA modificator (CAS#: 1415238-77-5) enables in vivo SHAPE (selective 2'-hydroxyl acylation followed by primer extension) analysis of RNA structure at single-nucleotide resolution in living cells [1].
Comparison of in vivo vs in vitro SHAPE profiles of 5S rRNA revealed key RNA-RNA and RNA-protein interactions, such as at residues M.M.A49/M.M.A50 (analogous to S.C.U50) which is kinked and exposed due to docking of Loop C into 28S rRNA and interaction with ribosomal protein L5 [1]. This probe can read out alterations in RNA tertiary structure and RNA-protein interactions without need for in vitro reconstitution [1]. It is a general cell-permeable probe for RNA structure applicable to multiple species including mouse, human, Drosophila, yeast, and E. coli [1]. |
| Exact Mass |
176.058
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|---|---|
| CAS # |
1415238-77-5
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| PubChem CID |
66563653
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| Appearance |
Light yellow to yellow solid powder
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| Density |
1.3±0.1 g/cm3
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| Boiling Point |
338.5±44.0 °C at 760 mmHg
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| Flash Point |
158.5±28.4 °C
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| Vapour Pressure |
0.0±0.7 mmHg at 25°C
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| Index of Refraction |
1.608
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| LogP |
0.78
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| Hydrogen Bond Donor Count |
0
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| Hydrogen Bond Acceptor Count |
3
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| Rotatable Bond Count |
1
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| Heavy Atom Count |
13
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| Complexity |
208
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| Defined Atom Stereocenter Count |
0
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| InChi Key |
OOBPIWAAJBRELM-UHFFFAOYSA-N
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| InChi Code |
InChI=1S/C9H8N2O2/c1-7-8(2-5-13-7)9(12)11-4-3-10-6-11/h2-6H,1H3
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| Chemical Name |
Imidazol-1-yl-(2-methylfuran-3-yl)methanone
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| Synonyms |
5S rRNA modificator FAI
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| HS Tariff Code |
2934.99.9001
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| Storage |
Powder -20°C 3 years 4°C 2 years In solvent -80°C 6 months -20°C 1 month |
| Shipping Condition |
Room temperature (This product is stable at ambient temperature for a few days during ordinary shipping and time spent in Customs)
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| Solubility (In Vitro) |
DMSO : ≥ 52 mg/mL (~295.17 mM)
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|---|---|
| Solubility (In Vivo) |
Note: Listed below are some common formulations that may be used to formulate products with low water solubility (e.g. < 1 mg/mL), you may test these formulations using a minute amount of products to avoid loss of samples.
Injection Formulations
Injection Formulation 1: DMSO : Tween 80： Saline = 10 : 5 : 85 (i.e. 100 μL DMSO stock solution → 50 μL Tween 80 → 850 μL Saline)(e.g. IP/IV/IM/SC) *Preparation of saline: Dissolve 0.9 g of sodium chloride in 100 mL ddH ₂ O to obtain a clear solution. Injection Formulation 2: DMSO : PEG300 ：Tween 80 : Saline = 10 : 40 : 5 : 45 (i.e. 100 μL DMSO → 400 μLPEG300 → 50 μL Tween 80 → 450 μL Saline) Injection Formulation 3: DMSO : Corn oil = 10 : 90 (i.e. 100 μL DMSO → 900 μL Corn oil) Example: Take the Injection Formulation 3 (DMSO : Corn oil = 10 : 90) as an example, if 1 mL of 2.5 mg/mL working solution is to be prepared, you can take 100 μL 25 mg/mL DMSO stock solution and add to 900 μL corn oil, mix well to obtain a clear or suspension solution (2.5 mg/mL, ready for use in animals). View More
Injection Formulation 4: DMSO : 20% SBE-β-CD in saline = 10 : 90 [i.e. 100 μL DMSO → 900 μL (20% SBE-β-CD in saline)] Oral Formulations
Oral Formulation 1: Suspend in 0.5% CMC Na (carboxymethylcellulose sodium) Oral Formulation 2: Suspend in 0.5% Carboxymethyl cellulose Example: Take the Oral Formulation 1 (Suspend in 0.5% CMC Na) as an example, if 100 mL of 2.5 mg/mL working solution is to be prepared, you can first prepare 0.5% CMC Na solution by measuring 0.5 g CMC Na and dissolve it in 100 mL ddH2O to obtain a clear solution; then add 250 mg of the product to 100 mL 0.5% CMC Na solution, to make the suspension solution (2.5 mg/mL, ready for use in animals). View More
Oral Formulation 3: Dissolved in PEG400 (Please use freshly prepared in vivo formulations for optimal results.) |
Calculation results
Working concentration： mg/mL；
Method for preparing DMSO stock solution： mg drug pre-dissolved in μL DMSO (stock solution concentration mg/mL). Please contact us first if the concentration exceeds the DMSO solubility of the batch of drug.
Method for preparing in vivo formulation:：Take μL DMSO stock solution, next add μL PEG300, mix and clarify, next addμL Tween 80, mix and clarify, next add μL ddH2O，mix and clarify.
(1) Please be sure that the solution is clear before the addition of next solvent. Dissolution methods like vortex, ultrasound or warming and heat may be used to aid dissolving.
(2) Be sure to add the solvent(s) in order.
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