BBa_M36980
1
BBa_M36980
Coenzyme B-12 Biosensor for E. coli (
2011-05-02T11:00:00Z
2015-05-08T01:14:07Z
Designed by Nick Davis and Rachel RoseFigura, Bioengineering undergraduate students at Stanford University.
Composite part for a Vitamin B12 Biosensor for Escherichia coli. Features a constitutively-active promoter (~99% promotion efficiency), the naturally-occurring vitamin B-12 riboswitch sequence, gemini fusion protein coding sequence (coding for both GFP and ??-galactosidase production), and a strong promoter (~99% termination efficiency).
true
false
_848_
0
9648
9
Discontinued
false
As opposed to more "traditional" biological sensor and actuator parts (that operate on the principle of PoPs), this composite Vit B12 Biosensor relies on RiPS (Ribosomes per second), as the main sensing structure (part M36998) is the naturally-occurring vitamin B12 riboswitch???a length of RNA that forms complex aptamer structures upon binding of vitamin B12 as the substrate.
false
Nick Davis, Rachel RoseFigura
component2118607
1
BBa_E0051
component2118608
1
BBa_M36010
component2118602
1
BBa_J23100
component2118603
1
BBa_M36998
annotation2118602
1
BBa_J23100
range2118602
1
1
35
annotation2118608
1
BBa_M36010
range2118608
1
1252
1333
annotation2118603
1
BBa_M36998
range2118603
1
44
283
annotation2118607
1
BBa_E0051
range2118607
1
290
1243
BBa_M36998
1
BBa_M36998
Coenzyme B-12 Riboswitch for E. coli (nucleotides 1-240)
2011-04-27T11:00:00Z
2015-05-08T01:14:07Z
Naturally-occurring, 240-nucleotides upstream of the btuB (B-12 uptake) coding sequence in E. coli. BtuB (the protein coded by the btuB gene) is a B-12 membrane transporter in E. coli bacteria.
This part contains the full string of nucleotides for the coenzyme B-12 riboswitch present in Escherichia coli. The aptamer domain of the riboswitch (nucleotides 1-202) undergoes substantial allosteric changes upon binding coenzyme B-12 (aka hydroxocobalamin). The coenzyme B-12 aptamer has one of the most complex metabolite-binding structures of known naturally-occurring riboswitches, though other riboswitches with simpler aptamers can also sense their targets with impressive precision and use the resultant structural changes to control gene expression.
Nucleotides 203-240 represent the 5'UTR (untranslated region) upstream of the btuB coding sequence in E. coli genome.
false
false
_848_
0
9648
9
Not in stock
false
An executive decision had to be made to include the 5'UTR region following the cobalamin ribowitch (aptamer) sequence. Nucleotides 203-240 represent the 5'UTR upstream of the btuB coding sequence. We chose to include these nucleotides in our part, as it is not completely clear what distinct role this region plays in translational control by the riboswitch, and few studies have demonstrated the significance of this region.
false
Nick Davis, Rachel RoseFigura
annotation2119205
1
B12 box/B12 element
range2119205
1
142
159
annotation2119161
1
Shine-Dalgarno Sequence
range2119161
1
210
237
BBa_E0051
1
BBa_E0051
lacZa.GFP fusion
2009-03-01T12:00:00Z
2015-08-31T04:07:25Z
amino acids 3-60 from lacZ and amino acids 2-end of GFP (E0043)
This part is a fusion protein between GFP and the alpha fragment of lacZ. It can be measured via fluorescence from GFP or through an assay for beta-galactosidase in a strain containing the omega fragment of lacZ.
false
false
_41_
0
22
84
Not in stock
false
The amino acid linker AGGSEGGGSEHHHHHHGSE is between the lacZa and GFP. The 6-his can also facilitate detection on a Western blot, for purification, etc.
false
Austin Che
annotation2001726
1
lacZa
range2001726
1
1
180
annotation2001728
1
GFP
range2001728
1
238
954
annotation2001727
1
linker
range2001727
1
181
237
BBa_J23100
1
BBa_J23100
constitutive promoter family member
2006-08-03T11:00:00Z
2015-08-31T04:08:40Z
Isolated from library of promoters
Released HQ 2013
Replace later
false
true
_52_
0
483
95
In stock
true
N/A
true
John Anderson
BBa_M36010
1
BBa_M36010
Transcription Terminator (Strong)
2011-04-25T11:00:00Z
2015-05-08T01:14:02Z
Guillaume Cambray et al. c/o BIOFAB Emeryville
E. coli RNA pol transcription terminator designed and tested by Guillaume Cambray at BIOFAB Emeryville. Based on the natural E. coli rnpB T1 terminator.
false
true
_848_
0
52
432
Not in stock
false
please see long description
false
Drew Endy
BBa_J23100_sequence
1
ttgacggctagctcagtcctaggtacagtgctagc
BBa_M36980_sequence
1
ttgacggctagctcagtcctaggtacagtgctagctactagaggccggtcctgtgagttaatagggaatccagtgcgaatctggagctgacgcgcagcggtaaggaaaggtgcgatgattgcgttatgcggacactgccattcggtgggaagtcatcatctcttagtatcttagatacccctccaagcccgaagacctgccggccaacgtcgcatctggttctcatcatcgcgtaatattgatgaaacctgcggcatccttcttctattgtggatgctttacatactagatgaccatgattacggattcactggccgtcgttttacaacgtcgtgactgggaaaaccctggcgttacccaacttaatcgccttgcagcacatccccctttcgccagctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcgcgggcggcagcgaaggcggcggcagcgaacatcatcatcatcatcatggcagcgaacgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactaccctgacctatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataatactagagtcggtcagtttcacctgatttacgtaaaaacccgcttcggcgggtttttgcttttggaggggcagaaagatgaatgactgtc
BBa_E0051_sequence
1
atgaccatgattacggattcactggccgtcgttttacaacgtcgtgactgggaaaaccctggcgttacccaacttaatcgccttgcagcacatccccctttcgccagctggcgtaatagcgaagaggcccgcaccgatcgcccttcccaacagttgcgcagcctgaatggcgaatggcgcgcgggcggcagcgaaggcggcggcagcgaacatcatcatcatcatcatggcagcgaacgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactaccctgacctatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataa
BBa_M36010_sequence
1
tcggtcagtttcacctgatttacgtaaaaacccgcttcggcgggtttttgcttttggaggggcagaaagatgaatgactgtc
BBa_M36998_sequence
1
gccggtcctgtgagttaatagggaatccagtgcgaatctggagctgacgcgcagcggtaaggaaaggtgcgatgattgcgttatgcggacactgccattcggtgggaagtcatcatctcttagtatcttagatacccctccaagcccgaagacctgccggccaacgtcgcatctggttctcatcatcgcgtaatattgatgaaacctgcggcatccttcttctattgtggatgctttaca
igem2sbol
1
iGEM to SBOL conversion
Conversion of the iGEM parts registry to SBOL2.1
James Alastair McLaughlin
Chris J. Myers
2017-03-06T15:00:00.000Z