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Random thoughts, mostly on scientific issues. Sunday, March 3, 2013. DSSR: Software for Defining the (Secondary) Structures of RNA. As the number of experimentally solved RNA-containing structures grows, it is becoming increasingly important to characterize the geometric features of the molecules in a consistent and efficient manner. Here comes DSSR. A software for Defining the (Secondary) Structures of RNA. See the post titled " DSSR, what's it and why bother? Any issues you have! Links to this post.

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Random thoughts, mostly on scientific issues. Sunday, March 3, 2013. DSSR: Software for Defining the (Secondary) Structures of RNA. As the number of experimentally solved RNA-containing structures grows, it is becoming increasingly important to characterize the geometric features of the molecules in a consistent and efficient manner. Here comes DSSR. A software for Defining the (Secondary) Structures of RNA. See the post titled DSSR, what's it and why bother? Any issues you have! Links to this post.

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Xiang-Jun's Corner | xiang-jun.blogspot.com Reviews

https://xiang-jun.blogspot.com

Random thoughts, mostly on scientific issues. Sunday, March 3, 2013. DSSR: Software for Defining the (Secondary) Structures of RNA. As the number of experimentally solved RNA-containing structures grows, it is becoming increasingly important to characterize the geometric features of the molecules in a consistent and efficient manner. Here comes DSSR. A software for Defining the (Secondary) Structures of RNA. See the post titled " DSSR, what's it and why bother? Any issues you have! Links to this post.

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Xiang-Jun's Corner: 3DNA base-mutation functionality for the study of pretein-DNA interactions

http://xiang-jun.blogspot.com/2011/10/3dna-base-mutation-functionality-for.html

Random thoughts, mostly on scientific issues. Sunday, October 30, 2011. 3DNA base-mutation functionality for the study of pretein-DNA interactions. In my last blog post titled " mutate bases, a new 3DNA tool for in silico base mutations of 3D nucleic acid structures. I outlined the availability of the mutate bases. Program and some areas of its possible applications, including to "perform base-pair mutations in DNA-protein complexes". In the September 6, 2011 issue of PNAS. In silico mutagenesis was carr...

2

Xiang-Jun's Corner: October 30, 2011

http://xiang-jun.blogspot.com/2011_10_30_archive.html

Random thoughts, mostly on scientific issues. Sunday, October 30, 2011. 3DNA base-mutation functionality for the study of pretein-DNA interactions. In my last blog post titled " mutate bases, a new 3DNA tool for in silico base mutations of 3D nucleic acid structures. I outlined the availability of the mutate bases. Program and some areas of its possible applications, including to "perform base-pair mutations in DNA-protein complexes". In the September 6, 2011 issue of PNAS. In silico mutagenesis was carr...

3

Xiang-Jun's Corner: June 05, 2011

http://xiang-jun.blogspot.com/2011_06_05_archive.html

Random thoughts, mostly on scientific issues. Saturday, June 11, 2011. Conformation of the sugar ring in nucleic acid structures. The conformation of the five-membered sugar ring in DNA/RNA structure can be characterized using the five corresponding endocyclic torsion angles (see Figure below). V0: C4'-O4'-C1'-C2' v1: O4'-C1'-C2'-C3' v2: C1'-C2'-C3'-C4' v3: C2'-C3'-C4'-O4' v4: C3'-C4'-O4'-C1'. Due to the ring constraint, the conformation can be characterized approximately by. And phase angle ( P. However...

4

Xiang-Jun's Corner: June 19, 2011

http://xiang-jun.blogspot.com/2011_06_19_archive.html

Random thoughts, mostly on scientific issues. Sunday, June 19, 2011. Sugar pucker correlates with phosphorus-related distance. The sugar puckers in DNA/RNA structures are predominately in either C3'-endo or C2'-endo (see Figure below), corresponding to the A- or B-form conformation in a DNA duplex. Recently, I (re-)read a few articles related to the RNA backbone by Jane Richardson et al. RNA backbone is rotameric. RNA backbone: consensus all-angle conformers and modular string nomenclature. Out of curios...

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Xiang-Jun's Corner: Conformation of the sugar ring in nucleic acid structures

http://xiang-jun.blogspot.com/2011/06/conformation-of-sugar-ring-in-nucleic.html

Random thoughts, mostly on scientific issues. Saturday, June 11, 2011. Conformation of the sugar ring in nucleic acid structures. The conformation of the five-membered sugar ring in DNA/RNA structure can be characterized using the five corresponding endocyclic torsion angles (see Figure below). V0: C4'-O4'-C1'-C2' v1: O4'-C1'-C2'-C3' v2: C1'-C2'-C3'-C4' v3: C2'-C3'-C4'-O4' v4: C3'-C4'-O4'-C1'. Due to the ring constraint, the conformation can be characterized approximately by. And phase angle ( P. However...

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Xiang-Jun's Corner

Random thoughts, mostly on scientific issues. Sunday, March 3, 2013. DSSR: Software for Defining the (Secondary) Structures of RNA. As the number of experimentally solved RNA-containing structures grows, it is becoming increasingly important to characterize the geometric features of the molecules in a consistent and efficient manner. Here comes DSSR. A software for Defining the (Secondary) Structures of RNA. See the post titled " DSSR, what's it and why bother? Any issues you have! Links to this post.

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