From: Tanner, John J. (TannerJJ_at_missouri.edu)
Date: Thu Jan 29 2015 - 12:51:42 CST
Since we are discussing histidine tautomers, I thought I would mention that this paper discusses the relative energies of the tautomers of His. The tau tautomer is preferred for neutral His.
John J. Tanner
Professor of Biochemistry and Chemistry
University of Missouri-Columbia
125 Chemistry Building
Columbia, MO 65211
On Jan 29, 2015, at 11:36 AM, <eprates_at_iqm.unicamp.br<mailto:eprates_at_iqm.unicamp.br>>
I have put the proton in the epsilon nitrogen, that is actually closer to the oxygen available to be the acceptor on a hydrogen bond then the other nitrogen. Then, I don't see the histidine flipping in order to set this expected interaction. Instead, the hydrogen from the carbon stays persistently directed to the oxygen (an average of 2.5 A distant). Meanwhile, the unprotonated nitrogen stays interacting with a water molecule.
In the paper I mentioned and in others I have found, it seems they assume this kind of interaction can be important when the imidazole is charged.. but not when neutral (like in my case).
Actually this is not really important in my study, but I got curious about it!
Quoting Josh Vermaas <vermaas2_at_illinois.edu<mailto:vermaas2_at_illinois.edu>>:
Just for funsies, where did you put the proton on the histidine? In charmm, you have two options, one to put it on the delta nitrogen, and the other on the epsilon, and I assume that's true for the others as well. If you haven't already, I'd put the proton on the epsilon nitrogen and flip the histidine around so it is the one making the hydrogen bond. In my brief reading of the paper, their mechanism relies on both nitrogens forming hydrogen bonds with their surroundings, drawing enough charge away from CE to make the hydrogen polar. Is this what you see too? Or did the residue flip from the starting structure, indicating that the other nitrogen should have been protonated?
On 01/29/2015 09:03 AM, eprates_at_iqm.unicamp.br<mailto:eprates_at_iqm.unicamp.br> wrote:
Have anyone noticed on simulations a persistent interaction between the hydrogen from epsilon carbon of histidine and a typical acceptor in hydrogen bond (like oxygen or nitrogen)? Or, is anyone aware about this uncommon hydrogen bonding reported in molecular dynamics literature?
I could find experimental studies involving this subject (e.g http://www.pnas.org/content/97/19/10371.full.pdf+html), but not computational ones.
I appreciate any help.
Scanned and tagged with DSPAM 3.10.2 by Instituto de Quimica - Unicamp
This archive was generated by hypermail 2.1.6 : Thu Dec 31 2015 - 23:21:36 CST