Difference between revisions of "Part:BBa K1442033"
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Each unique RNA dependent RNA polymerase (RdRP) initiates de novo replication of a RNA strand by interacting with RdRP-specific RNA sequences, henceforth called RdRP/RNA promoters. Please refer to Section: RdRP function for further details. The RdRP chosen for our project is taken from the Hepatitis C virus (HCV). The C2 RNA promoter was identified as such by Heinz, Kao (2000) , along with a number of other sequences. All of them possess a few common characteristics: an initiation cytidylate at the 3’ end, where the replication starts; and a stable secondary structure- single stranded tail and a stem of various length. Replication stops at the 5’ end. | Each unique RNA dependent RNA polymerase (RdRP) initiates de novo replication of a RNA strand by interacting with RdRP-specific RNA sequences, henceforth called RdRP/RNA promoters. Please refer to Section: RdRP function for further details. The RdRP chosen for our project is taken from the Hepatitis C virus (HCV). The C2 RNA promoter was identified as such by Heinz, Kao (2000) , along with a number of other sequences. All of them possess a few common characteristics: an initiation cytidylate at the 3’ end, where the replication starts; and a stable secondary structure- single stranded tail and a stem of various length. Replication stops at the 5’ end. | ||
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| + | <!-- Add more about the biology of this part here | ||
| + | ===Usage and Biology=== | ||
== Usage == | == Usage == | ||
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Used as an RNA promoter to direct replication by RdRP. | Used as an RNA promoter to direct replication by RdRP. | ||
| + | [[File:Promoters_Diagram.jpg]] | ||
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| + | === RdRP-directed Replication === | ||
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| + | [[File:RdRPFinal.png]] | ||
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| + | 1. The DNA strand gets transcribed and then translated, whereby the RdRP protein is produced. | ||
| + | 2. The active RdRP binds to the 3’ end of the transcribed plus –sense RNA strand. It produces its complementary minus-sense RNA strand. | ||
| + | 3. The RdRP interacts with the 5’ end of the replicated minus-sense RNA strand. It produces the plus-sense RNA strand again and completes the full replication of the RNA. The new RNA strand can act as a template as well and the process of replication can start over. | ||
== Mathematical Modelling == | == Mathematical Modelling == | ||
| + | [[File:ModEq.png]] | ||
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Revision as of 02:53, 16 October 2014
C2 3
Each unique RNA dependent RNA polymerase (RdRP) initiates de novo replication of a RNA strand by interacting with RdRP-specific RNA sequences, henceforth called RdRP/RNA promoters. Please refer to Section: RdRP function for further details. The RdRP chosen for our project is taken from the Hepatitis C virus (HCV). The C2 RNA promoter was identified as such by Heinz, Kao (2000) , along with a number of other sequences. All of them possess a few common characteristics: an initiation cytidylate at the 3’ end, where the replication starts; and a stable secondary structure- single stranded tail and a stem of various length. Replication stops at the 5’ end.
Sequence and Features
Assembly Compatibility:
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25INCOMPATIBLE WITH RFC[25]Illegal NgoMIV site found at 38
Illegal NgoMIV site found at 67 - 1000COMPATIBLE WITH RFC[1000]