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Guanidine exists protonated, as guanidinium, in solution at physiological pH. Guanidinium chloride (also known as guanidine hydrochloride) has chaotropic properties and is used to denature proteins. Guanidinium chloride is known to denature proteins with a linear relationship between concentration and free energy of unfolding.
Guanidinium chloride is a weak acid with a pK a of 13.6. The reason that it is such a weak acid is the complete delocalization of the positive charge through three nitrogen atoms (plus a little bit of positive charge on carbon). However, some stronger bases can deprotonate it, such as sodium hydroxide: C(NH 2) + 3 + OH − ⇌ HNC(NH 2) 2 + H 2 O
Guanidinium thiocyanate (GTC) or guanidinium isothiocyanate (GITC) is a chemical compound used as a general protein denaturant, being a chaotropic agent, although it is most commonly used as a nucleic acid protector in the extraction of DNA and RNA from cells. [1] GITC may also be recognized as guanidine thiocyanate.
The 2-propanol is then washed with ethanol and the pellet briefly air-dried and dissolved in TE buffer or RNAse free water. Guanidinium thiocyanate denatures proteins, including RNases, and separates rRNA from ribosomal proteins, while phenol, isopropanol and water are solvents with poor solubility.
A chaotropic agent is a substance which disrupts the structure of, and denatures, macromolecules such as proteins and nucleic acids (e.g. DNA and RNA).Chaotropic solutes increase the entropy of the system by interfering with intermolecular interactions mediated by non-covalent forces such as hydrogen bonds, van der Waals forces, and hydrophobic effects.
Guanidine nitrate is the chemical compound with the formula [C(NH 2) 3]NO 3. It is a colorless, water-soluble salt. It is produced on a large scale and finds use as precursor for nitroguanidine, [1] fuel in pyrotechnics and gas generators. Its correct name is guanidinium nitrate, but the colloquial term guanidine nitrate is widely used.
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A further explanation of how DNA binds to silica is based on the action of guanidinium chloride (GuHCl), which acts as a chaotrope. [3] A chaotrope denatures biomolecules by disrupting the shell of hydration around them.