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PhiKan-083

Alias: PhiKan 083; PhiKan083; PhiKan-083;
Cat No.:V7938 Purity: ≥98%
PhiKan-083, acarbazole analog, is a novel and potent stabilizer of p53 mutant Y220C thatcan stabilize Y220C (a p53 mutant) with a Kd of 167 μM.
PhiKan-083
PhiKan-083 Chemical Structure CAS No.: 1050480-30-2
Product category: New1
This product is for research use only, not for human use. We do not sell to patients.
Size Price Stock Qty
5mg
10mg
50mg
Other Sizes

Other Forms of PhiKan-083:

  • PhiKan 083
Official Supplier of:
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Top Publications Citing lnvivochem Products
Product Description

PhiKan-083, a carbazole analog, is a novel and potent stabilizer of p53 mutant Y220C that can stabilize Y220C (a p53 mutant) with a Kd of 167 μM. Has anticancer activity.

Biological Activity I Assay Protocols (From Reference)
ln Vitro
PhiKan 083, a derivative of carbazole, has a Kd of 167 μM[1] and a relative binding affinity (Kd) of 150 μM for p53Y220C in Ln229 cells[3]. It binds to surface cavities and stabilizes Y220C (p53 mutant). Its thermal denaturation rate is slowed down by PhiKan 083 [2]. Engineered Ln229 cell variations' cell viability is decreased by PhiKan 083 (125 μM, 48 hours) [3]. In Ln229 cells, combining PhiKan 083 (100 μM) with NSC 123127 (1 μM) increases the pro-apoptotic activity of all variants (p53wt, p53Y220C, p53G245S, and p53R282W) [3].
Cell Assay
Cell Viability Assay [1]
Cell Types: Ln229, Ln229-p53-wt, Ln229-p53-Y220C, Ln229-p53-G245S, Ln229-p53-R282W Cell
Tested Concentrations: 125 μM
Incubation Duration: 48 hrs (hours)
Experimental Results: Caused ∼70 ± The Ln229 cell variant had a 5% reduction in cell viability.
References

[1]. Targeted rescue of a destabilized mutant of p53 by an in silico screened drug. Proc Natl Acad Sci U S A. 2008 Jul 29;105(30):10360-5.

[2]. Effect of Y220C mutation on p53 and its rescue mechanism: a computer chemistry approach. Protein J. 2013 Jan;32(1):68-74.

[3]. A protein folding molecular imaging biosensor monitors the effects of drugs that restore mutant p53 structure and its downstream function in glioblastoma cells. Oncotarget. 2018 Apr 20;9(30):21495-21511.

These protocols are for reference only. InvivoChem does not independently validate these methods.
Physicochemical Properties
Molecular Formula
C16H19CLN2
Molecular Weight
274.79
Exact Mass
274.123
CAS #
1050480-30-2
Related CAS #
PhiKan 083;880813-36-5
PubChem CID
16255105
Appearance
White to off-white solid powder
Hydrogen Bond Donor Count
2
Hydrogen Bond Acceptor Count
1
Rotatable Bond Count
3
Heavy Atom Count
19
Complexity
278
Defined Atom Stereocenter Count
0
SMILES
Cl.N1(CC)C2C=CC=CC=2C2C=C(CNC)C=CC1=2
InChi Key
IXWVUPURFWFRNE-UHFFFAOYSA-N
InChi Code
InChI=1S/C16H18N2.ClH/c1-3-18-15-7-5-4-6-13(15)14-10-12(11-17-2)8-9-16(14)18;/h4-10,17H,3,11H2,1-2H3;1H
Chemical Name
1-(9-ethylcarbazol-3-yl)-N-methylmethanamine;hydrochloride
Synonyms
PhiKan 083; PhiKan083; PhiKan-083;
HS Tariff Code
2934.99.9001
Storage

Powder      -20°C    3 years

                     4°C     2 years

In solvent   -80°C    6 months

                  -20°C    1 month

Note: Please store this product in a sealed and protected environment, avoid exposure to moisture.
Shipping Condition
Room temperature (This product is stable at ambient temperature for a few days during ordinary shipping and time spent in Customs)
Solubility Data
Solubility (In Vitro)
DMSO : ~62.5 mg/mL (~227.45 mM)
H2O : ~2 mg/mL (~7.28 mM)
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
(e.g. IP/IV/IM/SC)
Injection Formulation 1: DMSO : Tween 80: Saline = 10 : 5 : 85 (i.e. 100 μL DMSO stock solution 50 μL Tween 80 850 μL Saline)
*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 : PEG300Tween 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).
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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)]
*Preparation of 20% SBE-β-CD in Saline (4°C,1 week): Dissolve 2 g SBE-β-CD in 10 mL saline to obtain a clear solution.
Injection Formulation 5: 2-Hydroxypropyl-β-cyclodextrin : Saline = 50 : 50 (i.e. 500 μL 2-Hydroxypropyl-β-cyclodextrin 500 μL Saline)
Injection Formulation 6: DMSO : PEG300 : castor oil : Saline = 5 : 10 : 20 : 65 (i.e. 50 μL DMSO 100 μLPEG300 200 μL castor oil 650 μL Saline)
Injection Formulation 7: Ethanol : Cremophor : Saline = 10: 10 : 80 (i.e. 100 μL Ethanol 100 μL Cremophor 800 μL Saline)
Injection Formulation 8: Dissolve in Cremophor/Ethanol (50 : 50), then diluted by Saline
Injection Formulation 9: EtOH : Corn oil = 10 : 90 (i.e. 100 μL EtOH 900 μL Corn oil)
Injection Formulation 10: EtOH : PEG300Tween 80 : Saline = 10 : 40 : 5 : 45 (i.e. 100 μL EtOH 400 μLPEG300 50 μL Tween 80 450 μL 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).
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Oral Formulation 3: Dissolved in PEG400
Oral Formulation 4: Suspend in 0.2% Carboxymethyl cellulose
Oral Formulation 5: Dissolve in 0.25% Tween 80 and 0.5% Carboxymethyl cellulose
Oral Formulation 6: Mixing with food powders


Note: Please be aware that the above formulations are for reference only. InvivoChem strongly recommends customers to read literature methods/protocols carefully before determining which formulation you should use for in vivo studies, as different compounds have different solubility properties and have to be formulated differently.

 (Please use freshly prepared in vivo formulations for optimal results.)
Preparing Stock Solutions 1 mg 5 mg 10 mg
1 mM 3.6391 mL 18.1957 mL 36.3914 mL
5 mM 0.7278 mL 3.6391 mL 7.2783 mL
10 mM 0.3639 mL 1.8196 mL 3.6391 mL

*Note: Please select an appropriate solvent for the preparation of stock solution based on your experiment needs. For most products, DMSO can be used for preparing stock solutions (e.g. 5 mM, 10 mM, or 20 mM concentration); some products with high aqueous solubility may be dissolved in water directly. Solubility information is available at the above Solubility Data section. Once the stock solution is prepared, aliquot it to routine usage volumes and store at -20°C or -80°C. Avoid repeated freeze and thaw cycles.

Calculator

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An example of molarity calculation using the molarity calculator is shown below:
What is the mass of compound required to make a 10 mM stock solution in 5 ml of DMSO given that the molecular weight of the compound is 350.26 g/mol?
  • Enter 350.26 in the Molecular Weight (MW) box
  • Enter 10 in the Concentration box and choose the correct unit (mM)
  • Enter 5 in the Volume box and choose the correct unit (mL)
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  • The answer of 17.513 mg appears in the Mass box. In a similar way, you may calculate the volume and concentration.

Dilution Calculator allows you to calculate how to dilute a stock solution of known concentrations. For example, you may Enter C1, C2 & V2 to calculate V1, as detailed below:

What volume of a given 10 mM stock solution is required to make 25 ml of a 25 μM solution?
Using the equation C1V1 = C2V2, where C1=10 mM, C2=25 μM, V2=25 ml and V1 is the unknown:
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  • Enter 25 into the Concentration (End) box and select the correct unit (mM)
  • Enter 25 into the Volume (End) box and choose the correct unit (mL)
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  • The answer of 62.5 μL (0.1 ml) appears in the Volume (Start) box
g/mol

Molecular Weight Calculator allows you to calculate the molar mass and elemental composition of a compound, as detailed below:

Note: Chemical formula is case sensitive: C12H18N3O4  c12h18n3o4
Instructions to calculate molar mass (molecular weight) of a chemical compound:
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Definitions of molecular mass, molecular weight, molar mass and molar weight:
  • Molecular mass (or molecular weight) is the mass of one molecule of a substance and is expressed in the unified atomic mass units (u). (1 u is equal to 1/12 the mass of one atom of carbon-12)
  • Molar mass (molar weight) is the mass of one mole of a substance and is expressed in g/mol.
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Reconstitution Calculator allows you to calculate the volume of solvent required to reconstitute your vial.

  • Enter the mass of the reagent and the desired reconstitution concentration as well as the correct units
  • Click the “Calculate” button
  • The answer appears in the Volume (to add to vial) box
In vivo Formulation Calculator (Clear solution)
Step 1: Enter information below (Recommended: An additional animal to make allowance for loss during the experiment)
Step 2: Enter in vivo formulation (This is only a calculator, not the exact formulation for a specific product. Please contact us first if there is no in vivo formulation in the solubility section.)
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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.

Biological Data
  • Effects of PhiKan083 on T-p53C-Y220C. (A) Changes in chemical shifts (normalized) vs. concentration for 15 resonances of T-p53C-Y220C in the presence of PhiKan083 at 20°C. The data are fitted to a single-site binding model. (B) Thermal denaturation of T-p53C-Y220C (10 μM) in the presence of PhiKan083. Denaturation is irreversible. However, at the very high heating rate of 270 K/h, the measured Tm is close to the reversible value. The data are fitted to the equation: T = Tm/(1 − (R/ΔS D-N(Tm))ln(1 + [L]/Kd)), where T is the observed melting temperature, Tm that in the absence of ligand L, Kd its dissociation constant, and ΔSD-N(Tm) the entropy of denaturation at Tm (the derivation is in the legend to Fig. S5). (C) Effect of PhiKan083 on kinetics of thermal denaturation at 37°C.[1].Boeckler FM, et al. Targeted rescue of a destabilized mutant of p53 by an in silico screened drug. Proc Natl Acad Sci U S A. 2008 Jul 29;105(30):10360-5.
  • Isothermal titration calorimetry of PhiKan083 binding at 20°C showing raw data (Upper) and fit after integration (Lower).[1].Boeckler FM, et al. Targeted rescue of a destabilized mutant of p53 by an in silico screened drug. Proc Natl Acad Sci U S A. 2008 Jul 29;105(30):10360-5.
  • Crystal structure of T-p53C-Y220C in complex with PhiKan083. (A) Ribbon representation of the overall structure of T-p53C-Y220C in complex with PhiKan083 (PDB ID code 2VUK, chain B). PhiKan083 is shown in green as a stick model with its molecular surface. It binds to the mutation-induced cleft on the protein surface that is distant from the known functional interfaces of the protein. The side chain of Cys-220 at the mutation site, which adopts two alternative conformations, is highlighted in orange. (B) Stereoview of the PhiKan083-binding site. p53 residues within a 5-Å distance of the ligand are shown as gray stick models. The protein surface is highlighted in semitransparent gray. (C) |Fo−Fc| simulated-annealing omit map of PhiKan083 bound to chain B of T-p53C-Y220C contoured at 3.0 σ. (D) Superposition of T-p53C-Y220C in its free (PDB ID code 2J1X chain B; green) (16) and PhiKan083-bound form (yellow), indicating small structural shifts upon ligand binding. PhiKan083 is depicted as a gray stick model. The small red spheres represent water molecules in the ligand-free structure that are displaced upon ligand binding. (E) In wild-type p53, Tyr-220 blocks part of the Phikan083-binding pocket, as shown for the structure of wild-type core domain (PDB code 2AC0, chain B; cyan) (42) superimposed onto Phikan083-bound T-p53C-Y220C (yellow protein chain and gray PhiKan083 molecule) and free T-p53C-Y220C (green). (F) Docking of Phikan083 to the structure of ligand-free T-p53C-Y220C (PDB ID code 2J1X, chain A, Thr-230 rotamer A; purple) and to the protein chain of the complex structure (yellow) compared with its actual binding mode in the crystal structure of the complex (green). All images were prepared with PYMOL .[1].Boeckler FM, et al. Targeted rescue of a destabilized mutant of p53 by an in silico screened drug. Proc Natl Acad Sci U S A. 2008 Jul 29;105(30):10360-5.
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