Daeseong Kim

8 Questions 5 Answers 0 Followers

Questions related from Daeseong Kim

Why is the stability of a protein evaluated with FoldX expressed as a positive value?

As I understand it, the folding energy of a protein is usually expressed as a negative value. ΔG < 0 is expected for maintaining the native state in the folding condition. However, when...

19 September 2024 2,673 3 View

Could an abundance of exposed positive charge on the surface of proteins affect size exclusion chromatography performance?

Hello, I am analyzing purified antibodies using a superdex 200 increase 10/300 GL column. Occasionally, I observe tailing at the peak, particularly with antibodies that have high surface...

26 February 2024 2,394 3 View

Can the presence of a charged molecule in close proximity affect the pKa?

I am curious whether the pKa of a charged side chain on the surface of a protein can be influenced by the charged state of nearby amino acids. My hypothesis suggests that, in comparing Figure 1A...

27 January 2024 7,420 3 View

Is it possible for the pKa shft when identical charges are densely packed?

If aspartic acid residues are densely packed and the distance between their side chain functional groups is close, I believe that the pKa might upshift to reduce charge repulsion. Is my...

26 January 2024 1,564 1 View

Is the pH lower than the endosomal lumen at the location immediately adjacent to the membrane?

In the case of amino acids such as Asp and Glu, it is generally known that the charge state can change due to protonation when exposed to the acidic pH in the endosome. (e.g. DT toxin - TL5 loop...

20 October 2022 9,656 0 View

How to extract native protein from mammalian cell?

Hello, Currently, I am conducting an experiment using a reporter cell (a mammalian cell expressing target protein in cytosol). The experiment is not going well. So I would like to check whether...

07 September 2022 4,457 3 View

Is there any reference about correlation between protein folding energy and its expression level?

I am currently studying how to introduce mutations to improve the expression level of proteins. My lab has a system that can model the structure of proteins through alphafold, which models mutants...

11 October 2021 422 2 View

How to add restriction enzyme site to given peptide sequence for molecular cloning?

I am currently conducting molecular cloning. I want to put a new restriction enzyme site in a given peptide sequence, and I want to preserve the peptide sequence as much as possible. More...

12 April 2021 1,169 3 View