TM-Align

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Isobel
Posts: 1
Joined: Sat Oct 09, 2021 11:48 pm

TM-Align

Post by Isobel »

Hi, just a quick question. In TM_Align, is the reported RMSD value the average angstrom distance between the alpha carbons in the backbones of the two structures? Thanks.
xiaogenz
Posts: 157
Joined: Sun Apr 25, 2021 12:02 am

Re: TM-Align

Post by xiaogenz »

RMSD is not the average of Ca distance error. It is the square root of the Ca distance between the two structures divided by the sequence length after the superposition. See https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4321859/
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