Part:BBa_K874001

Polydactyl Zinc Finger (PZF3838)

This part codes for the 3838 Polydactyl Zinc Finger (PZF). It consists of 6 individual zinc fingers that together bind to a specific 18pb DNA sequence.
The actual binding sequence is 5..GGGGCCGGAGCCGCAGTG..3 and can be broken to the following codons per zinc finger:

• Zinc Finger 1: 5..GGG..3
• Zinc Finger 2: 5..GCC..3
• Zinc Finger 3: 5..GGA..3
• Zinc Finger 4: 5..GCC..3
• Zinc Finger 5: 5..GCA..3
• Zinc Finger 6: 5..GTG..3

Why this Protein

This PZF was chosen because many of the PZF's we found where listed to be partial working or not verified to be working. This seems to be a common problem with PZF's which finnaly led us to enlist the help from Sylvia de Pater in obtaining a working PZF.

Usage and Biology

This PZF was designed in research done by Bert van der Zaal, Paul Hooykaas and Sylvia de Pater in order to recognise the E2C transcription factor binding site in Arabidopsis.[1] It has thus been tested and verify to fold and function in Arabidopsis.
A indication that the PZF functions properly in E. coli (LacIq) is also provided by the iGEM Amsterdam 2012 project. More information can be found on its verification on the BBa_K874200 part page.

On a final note! Since the individual Zinc Fingers in this PZF (or any PZF for that matter) are highly similar in sequence we strongly recommender that when doing PCR primers are used that ad-heal outside of the actual PZF.

Sequence and Features

Assembly Compatibility:

• 10
  COMPATIBLE WITH RFC[10]
• 12
  COMPATIBLE WITH RFC[12]
• 21
  COMPATIBLE WITH RFC[21]
• 23
  COMPATIBLE WITH RFC[23]
• 25
  COMPATIBLE WITH RFC[25]
• 1000
  COMPATIBLE WITH RFC[1000]

References

1. de Pater S, Neuteboom LW, Pinas JE, Hooykaas PJ, van der Zaal BJ. (2009). [http://www.ncbi.nlm.nih.gov/pubmed/19754840 ZFN-induced mutagenesis and gene-targeting in Arabidopsis through Agrobacterium-mediated floral dip transformation]. Plant Biotechnol J.