Question: mfold energies difference
gravatar for nathanielsaxe
3.1 years ago by
United Kingdom
nathanielsaxe10 wrote:


I have two microRNA sequences that differ by a few nucleotides. I used mfold on both sequences and they have slightly different energies -44.9 and -44.2. I was wondering what the significance of this difference is, or what sort of difference is significant. I looked at the folding prediction and the picture looks exactly the same, so I'm not too sure how to interpret this 0.7 change in binding energy.


mfold • 770 views
ADD COMMENTlink modified 3.1 years ago by mcc80 • written 3.1 years ago by nathanielsaxe10
gravatar for mcc
3.1 years ago by
mcc80 wrote:

One thing that occurred to me is this paper by Nick Pace,

Hydrogen Bonding Stabilizes Globular Proteins
Biophysical Journal Volume 71 October 1996 2033-2039


Measurements of the change in conformational stability, delta (delta G), for the mutation of a hydrogen bonded residue to one incapable of hydrogen bonding suggest a stabilization of 1.0 kcal/mol per hydrogen bond. If the delta (delta G) values are corrected for differences in side-chain hydrophobicity and conformational entropy, then the estimated stabilization becomes 2.2 kcal/mol per hydrogen bond.

So, H-bonding seems outside your range.

ADD COMMENTlink written 3.1 years ago by mcc80
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1299 users visited in the last hour