Difference between revisions of "Part:BBa K2217021"
| (One intermediate revision by the same user not shown) | |||
| Line 3: | Line 3: | ||
<partinfo>BBa_K2217021 short</partinfo> | <partinfo>BBa_K2217021 short</partinfo> | ||
| − | miRNA-1825 binding site on hsa-circ-0000064 | + | We have used SimRNA [1] Tool for simulating circular structure of miRNA-1825 To model interaction binding site on hsa-circ-0000064 as SimRNA generates a circular starting conformation with the 5’ and 3’ ends close to each other as a starting |
| + | structure for simulation. After specifying Secondary structure restraints using multiline dots-and-brackets | ||
| + | format, The dots-and-brackets input is parsed and internally converted into the dedicated list of | ||
| + | restraints. W used a default of 500 steps and 1% of the lowest energy frames taken to clustering. | ||
| + | Information about Our Team Modeling can be found at [http://2017.igem.org/Team:AFCM-Egypt/model/# Egypt-AFCM Team Modeling] | ||
| + | |||
| + | [[File:MiRNA.png]] | ||
| + | |||
| + | ==References== | ||
| + | [1] Boniecki MJ, Lach G, Dawson WK, et al. SimRNA: a coarse-grained method for RNA folding | ||
| + | simulations and 3D structure prediction. Nucleic Acids Research. 2016;44(7):e63. | ||
| + | doi:10.1093/nar/gkv1479. | ||
<!-- Add more about the biology of this part here | <!-- Add more about the biology of this part here | ||
Latest revision as of 17:00, 26 October 2017
miRNA-1825 binding site on hsa-circ-0000064
We have used SimRNA [1] Tool for simulating circular structure of miRNA-1825 To model interaction binding site on hsa-circ-0000064 as SimRNA generates a circular starting conformation with the 5’ and 3’ ends close to each other as a starting structure for simulation. After specifying Secondary structure restraints using multiline dots-and-brackets format, The dots-and-brackets input is parsed and internally converted into the dedicated list of restraints. W used a default of 500 steps and 1% of the lowest energy frames taken to clustering. Information about Our Team Modeling can be found at [http://2017.igem.org/Team:AFCM-Egypt/model/# Egypt-AFCM Team Modeling]
References
[1] Boniecki MJ, Lach G, Dawson WK, et al. SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction. Nucleic Acids Research. 2016;44(7):e63. doi:10.1093/nar/gkv1479.
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]