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Topics - kogucior

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1
RNA structures (DSSR) / Incorrect topology assignment
« on: May 26, 2021, 10:57:27 am »
Dear Dr. Xiang-Jun Lu,

I was browsing prepared by you the G-quadruplex database (DSSR-G4DB) and I
encountered an error.
I think that for "http://g4.x3dna.org/entries/2kqg/index.html" the
"+P+P+P" topology is wrongly assigned, it should be "-P-P-P".
I discovered that maybe this is due to a mis-ordering of G-strands
(#1-#4-#3-#2), where the first plane has a composition:
1 glyco-bond = s --- groove = w - n Major -> WC nts = 4 GGGG A.DG2,
A.DG18, A.DG14, A.DG6

and it should have:

1 glyco-bond = s --- groove = w - n Major -> WC nts = 4 GGGG A.DG2, A.DG6,
A.DG14, A.DG18

It is possible that there are more mistakes. I am curious what they come
from and I am looking forward to the revised version of the database.

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Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.