Coding
cI HK022

Part:BBa_C0050:Design

Designed by: Reshma Shetty   Group: Antiquity   (2003-01-31)


cI repressor from phage HK022 (+LVA?)


Barcodes are discontinued, but one was appended to the sequence of this part. Composite parts using this part will include the barcode. More ...

Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 476
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI.rc site found at 640


Design Notes

References (unparsed) here:

Carlson NG, Little JW. Highly cooperative DNA binding by the coliphage HK022 repressor. J Mol Biol. 1993 Apr 20;230(4):1108-30.

PMID: 8487297.

Mao C, Little JW. Mutations affecting cooperative DNA binding of phage HK022 CI repressor.

J Mol Biol. 1998 May 29;279(1):31-48. PMID: 9636698.


References (unparsed) here:

Carlson NG, Little JW. Highly cooperative DNA binding by the coliphage HK022 repressor. J Mol Biol. 1993 Apr 20;230(4):1108-30.

PMID: 8487297.

Mao C, Little JW. Mutations affecting cooperative DNA binding of phage HK022 CI repressor.

J Mol Biol. 1998 May 29;279(1):31-48. PMID: 9636698.


Derived from [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Search&db=nucleotide&term=STHK022N [Genbank STHK022N] ].

Response from John Little (Arizona) regarding the start of HK022 cI

From: <jlittle@email.arizona.edu>

Date: Tue Jan 21, 2003 4:39:21 PM US/Eastern

To: "Drew Endy" <endy@MIT.EDU>

Subject: RE: hk022 cI start (naive question)?

Hello Drew and Michael, I seriously doubt that the extra 27 aa are part of CI. It doesn't make sense in terms of the biology, for sure. In any case, the protein we characterized starts where Carlson and Little stated; as I recall, oR3 partially overlaps the start of cI. I have a vague memory of some possibly interesting biology, having to do with multicopy plasmids. I don't recall the findings themselves. Anyway, one possible explanation was that this extra N-terminal addition was made (e.g. from the pRE promoter, or from a message that arose from transcription around the entire plasmid), making a protein with altered functions. We never followed it up.

Good luck

John

-- Original Message --

Date: Sun, 19 Jan 2003 15:26:26 -0500

Subject: hk022 cI start (naive question)?

Cc: elowitm@rockefeller.edu

To: jlittle@u.arizona.edu

From: Drew Endy <endy@MIT.EDU>

Hi John, I'm sitting here with Michael Elowitz and we're working through the sequence for HK022 cI. We noticed that the annotation from NC_002166 includes an "extra" 81 base pairs upstream of what we thought of as the actual start. It looks like this extra DNA extends into the PR regulatory region. We're wondering what's going on here? I'm guessing this is well documented somewhere. Thanks for any pointers/info!

Drew

It is unknown whether there is cross-talk between this repressor and Lambda cI regulatory region, 434 cI regulatory region and P22 regulatory region.



Source

Bacteriophage HK022.

References