Netiquette · Download · News · Gallery · Homepage · DSSR Manual · G-quadruplexes · DSSR-Jmol · DSSR-PyMOL · DSSR Licensing · Video Overview· RNA Covers

« previous next »
Pages: [1]   Go Down

Author Topic: How 3DNA calculate base overlapping?  (Read 21400 times)

Offline jzhang71

  • non-commercial
  • with-posts
  • *
  • Posts: 1
    • View Profile
How 3DNA calculate base overlapping?
« on: December 17, 2020, 09:42:59 pm »
Hi,

Do you know how 3DNA calculate the overlapping area of bases when calculating the base stacking? By Monte Carlo method or there is an analytical solution? Is there a analytical solution of purine-purine stacking (since purine have two rings)?

Thank you very much!
« Last Edit: December 17, 2020, 09:51:18 pm by jzhang71 »
Logged

Offline xiangjun

  • Administrator
  • with-posts
  • *****
  • Posts: 1650
    • View Profile
    • 3DNA homepage
Re: How 3DNA calculate base overlapping?
« Reply #1 on: December 27, 2020, 02:28:29 pm »
Please read the 2003 3DNA paper and the 2015 DSSR paper.

Xiang-Jun
Logged
Pages: [1]   Go Up
« previous next »
 

Funded by the NIH R24GM153869 grant on X3DNA-DSSR, an NIGMS National Resource for Structural Bioinformatics of Nucleic Acids

Created and maintained by Dr. Xiang-Jun Lu, Department of Biological Sciences, Columbia University