Document Detail

Small changes in free energy assignments for unpaired bases do not affect predicted secondary structures in single stranded RNA.
Jump to Full Text
MedLine Citation:
PMID:  7063404     Owner:  NLM     Status:  MEDLINE    
We present extensive calculations of the secondary structure of mRNA which point to its insensitivity to small changes in the free energy assignments of single stranded regions. Truncating the free energies of hairpin loops, bulges, internal loops and multibranched junctions to two significant digits yields structures nearly identical to those generated using three digit values. The results show that one can safely use truncated values in RNA folding calculations. The implementation of these results enabled us to carry out secondary structure calculations on 2600 nucleotides in a single computer run.
R Nussinov; I Tinoco; A B Jacobson
Related Documents :
17763864 - Triplex configuration in the nick-free dnas that constitute the chromosomal scaffolds i...
15831794 - Asymmetry in rna pseudoknots: observation and theory.
11790144 - Nmr study of a heterochiral dna hairpin:impact of l-enantiomery in the loop.
14745524 - Thermal and guanidine hydrochloride-induced denaturation of human cystatin c.
18428924 - Preparation of 5'-silyl-2'-orthoester ribonucleosides for use in oligoribonucleotide sy...
3037524 - Repa and dnaa proteins are required for initiation of r1 plasmid replication in vitro a...
Publication Detail:
Type:  Comparative Study; Journal Article; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, U.S. Gov't, P.H.S.    
Journal Detail:
Title:  Nucleic acids research     Volume:  10     ISSN:  0305-1048     ISO Abbreviation:  Nucleic Acids Res.     Publication Date:  1982 Jan 
Date Detail:
Created Date:  1982-05-21     Completed Date:  1982-05-21     Revised Date:  2009-11-18    
Medline Journal Info:
Nlm Unique ID:  0411011     Medline TA:  Nucleic Acids Res     Country:  ENGLAND    
Other Details:
Languages:  eng     Pagination:  341-9     Citation Subset:  IM    
Export Citation:
APA/MLA Format     Download EndNote     Download BibTex
MeSH Terms
Base Composition
Base Sequence*
Nucleic Acid Conformation*
RNA, Messenger*
Grant Support
Reg. No./Substance:
0/RNA, Messenger

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine

Full Text
Journal Information
Journal ID (nlm-ta): Nucleic Acids Res
ISSN: 0305-1048
ISSN: 1362-4962
Article Information
Download PDF

Print publication date: Day: 11 Month: 1 Year: 1982
Volume: 10 Issue: 1
First Page: 341 Last Page: 349
ID: 326137
PubMed Id: 7063404

Small changes in free energy assignments for unpaired bases do not affect predicted secondary structures in single stranded RNA.
R Nussinov
I Tinoco, Jr
A B Jacobson

Article Categories:
  • Research Article

Previous Document:  GEL, a DNA sequencing project management system.
Next Document:  Two-dimensional graphic analysis of DNA sequence homologies.