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Questions and answers => General discussions (Q&As) => Topic started by: aneeshcna on July 23, 2010, 05:30:10 am

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Title: Methodology for sugar puckering calcualtion
Post by: aneeshcna on July 23, 2010, 05:30:10 am

Dear 3DNA users,

                Can anyone tell me what methodology ( mathematics) 3DNA using for calculating sugar puckering in nucleotides ( any reference ) ?.

Thanks in advance

Sincerely
Aneesh

Title: Re: Methodology for sugar puckering calcualtion
Post by: xiangjun on July 23, 2010, 07:34:52 pm

The reference is: Altona, C. & Sundaralingam, M. (1972) "Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation." J. Am. Chem. Soc. 94, 8205-8212. See the SHCNAaP paper (http://http://www.ncbi.nlm.nih.gov/pubmed/9356255) for further details; as mentioned in Section SCHNAaP/SCHNArP (http://http://3dna.rutgers.edu:8080/forum/viewforum.php?f=9) of the forum, [mono:2tedyoak]analyze[/mono:2tedyoak] in 3DNA is derived directly from SCHNAaP.

HTH,

Xiang-Jun

Title: Re: Methodology for sugar puckering calcualtion
Post by: aneeshcna on July 24, 2010, 01:34:49 am

Dear Dr. Xiang-Jun,

Thanks for your quick reply


regards
Aneesh

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The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.