Cell-cell signalling

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Promoters (?) Transcriptional regulators (?) Enzymes (?) Translational units (?) Composite parts

Promoters

These promoters are all related to cell signalling. Cell signalling is often mediated by a small molecule or peptide that diffuses between cells and can diffuse through cell membranes. The signalling molecule is recognized by a receptor protein (often located in or near the membrane of the cell) that regulates the activity of the promoters listed here directly, or via a signalling cascade.


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-?-NameDescriptionPromoter SequencePositive
Regulators
Negative
Regulators
A  BBa_I1051Lux cassette right promoter . . . tgttatagtcgaatacctctggcggtgata
1  BBa_I14015P(Las) TetO . . . ttttggtacactccctatcagtgatagaga
1  BBa_I14016P(Las) CIO . . . ctttttggtacactacctctggcggtgata
1  BBa_I14017P(Rhl) . . . tacgcaagaaaatggtttgttatagtcgaa
   BBa_I739105Double Promoter (LuxR/HSL, positive / cI, negative) . . . cgtgcgtgttgataacaccgtgcgtgttga
1  BBa_I746104P2 promoter in agr operon from S. aureus . . . agattgtactaaatcgtataatgacagtga
 WBBa_I751501plux-cI hybrid promoter . . . gtgttgatgcttttatcaccgccagtggta
 WBBa_I751502plux-lac hybrid promoter . . . agtgtgtggaattgtgagcggataacaatt
A  BBa_I761011CinR, CinL and glucose controlled promotor . . . acatcttaaaagttttagtatcatattcgt
   BBa_J06403RhIR promoter repressible by CI . . . tacgcaagaaaatggtttgttatagtcgaa
A BBa_J102001Reverse Lux Promoter . . . tcttgcgtaaacctgtacgatcctacaggt
   BBa_J64000rhlI promoter . . . atcctcctttagtcttccccctcatgtgtg
   BBa_J64010lasI promoter . . . taaaattatgaaatttgcataaattcttca
   BBa_J64067LuxR+3OC6HSL independent R0065 . . . gtgttgactattttacctctggcggtgata
   BBa_J64712LasR/LasI Inducible & RHLR/RHLI repressible Promoter . . . gaaatctggcagtttttggtacacgaaagc
1  BBa_K091107pLux/cI Hybrid Promoter . . . acaccgtgcgtgttgatatagtcgaataaa
A  BBa_K091117pLas promoter . . . aaaattatgaaatttgtataaattcttcag
1  BBa_K091143pLas/cI Hybrid Promoter . . . ggttctttttggtacctctggcggtgataa
1  BBa_K091146pLas/Lux Hybrid Promoter . . . tgtaggatcgtacaggtataaattcttcag
 WBBa_K091156pLux . . . caagaaaatggtttgttatagtcgaataaa
   BBa_K091157pLux/Las Hybrid Promoter . . . ctatctcatttgctagtatagtcgaataaa
1  BBa_K145150Hybrid promoter: HSL-LuxR activated, P22 C2 repressed . . . tagtttataatttaagtgttctttaatttc
AWBBa_K266000PAI+LasR -> LuxI (AI) . . . caccttcgggtgggcctttctgcgtttata
AWBBa_K266005PAI+LasR -> LasI & AI+LuxR --| LasI . . . aataactctgatagtgctagtgtagatctc
AWBBa_K266006PAI+LasR -> LasI+GFP & AI+LuxR --| LasI+GFP . . . caccttcgggtgggcctttctgcgtttata
AWBBa_K266007Complex QS -> LuxI & LasI circuit . . . caccttcgggtgggcctttctgcgtttata
 WBBa_K658006position 3 mutated promoter lux pR-3 (luxR & HSL regulated) . . . caagaaaatggtttgttatagtcgaataaa
 WBBa_K658007position 5 mutated promoter lux pR-5 (luxR & HSL regulated) . . . caagaaaatggtttgttatagtcgaataaa
 WBBa_K658008position 3&5 mutated promoter lux pR-3/5 (luxR & HSL regulated) . . . caagaaaatggtttgttatagtcgaataaa
1  BBa_R0061Promoter (HSL-mediated luxR repressor)ttgacacctgtaggatcgtacaggtataat
1  BBa_R0062Promoter (luxR & HSL regulated -- lux pR) . . . caagaaaatggtttgttatagtcgaataaa
1  BBa_R0063Promoter (luxR & HSL regulated -- lux pL)
. . . cacgcaaaacttgcgacaaacaataggtaa
1  BBa_R0071Promoter (RhlR & C4-HSL regulated) . . . gttagctttcgaattggctaaaaagtgttc
1  BBa_R0078Promoter (cinR and HSL regulated) . . . ccattctgctttccacgaacttgaaaacgc
1  BBa_R0079Promoter (LasR & PAI regulated) . . . ggccgcgggttctttttggtacacgaaagc
1  BBa_R1062Promoter, Standard (luxR and HSL regulated -- lux pR)
. . . aagaaaatggtttgttgatactcgaataaa

Transcriptional regulators

Transcriptional regulators either activate or repress transcription from cognate promoters.


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-?-NameProteinDescriptionTagDirectionUniprotKEGGOperatorLigandLength
1  BBa_C0062LuxRluxR repressor/activator, (no LVA?)NoneForwardP12746   781
1  BBa_C0071rhlR-LVArhlR repressor/activator from P. aeruginosa PA3477 (+LVA)LVAForwardP54292   787
1  BBa_C0079lasR-LVAlasR activator from P. aeruginosa PAO1(+LVA)LVAForwardP25084   781
1  BBa_C0077cinRcinR activator from Rhizobium leguminosarum (+LVA)LVAForward~ Q84HT2   787
1  BBa_C0171rhIRrhlR repressor/activator from P. aeruginosa PA3477 (no LVA)NoneForwardP54292   729
1  BBa_C0179lasRlasR activator from P. aeruginosa PAO1(no LVA)NoneForwardP25084   723
1  BBa_K131022 LuxO D47E, Vibrio harveyi    1362
1  BBa_K131023 LuxO D47A, Vibrio harveyi    1362
AWBBa_K082006 LuxR-G2F    753
A  BBa_K266002lasR-LVALasR + TermLVAForwardP25084   918
   BBa_S04301lasR-LVAC0079:B0015LVAForwardP25084   918
  BBa_K783054lasR-LVAThis is a MoClo converted version of BBa_C0079LVAForwardP25084   756


Enzymes

< Back to Biosynthesis Protein coding sequences

N-Acyl Homoserine lactones (AHLs or N-AHLs) are a class of signaling molecules involved in bacterial quorum sensing. Quorum sensing is a method of communication between bacteria that enables the coordination of group based behavior based on population density. In synthetic biology, genetic parts derived from quorum sensing systems have been used to create patterns on a lawn of bacteria and to achieve synchronized cell behavior. AHL can diffuse across cell membranes and is stable in growth media over a range of pH values. AHL can bind to transcriptional activators such as LuxR and stimulate transcription from cognate promoters. Several similar quorum sensing systems exists across different bacterial species; thus, there are several known enzymes that synthesize or degrade different AHL molecules. Note that genetic parts derived from different quorum sensing systems may have different levels of crosstalk.

Biosynthesis


More...
-?-NameProteinDescriptionDirectionUniprotKEGGE.C.SubstrateProductLength
1  BBa_C0061luxI-LVAautoinducer synthetase for AHLForwardP12747nonenone  643
1  BBa_C0060aiiA-LVAautoinducer inactivation enzyme from Bacillus; hydrolyzes acetyl homoserine lactoneForwardQ1WNZ5none3.1.1.-  814
1  BBa_C0070rhlI-LVAautoinducer synthetase for N-butyryl-HSL (BHL) and HHLForwardQ02QW5nonenone  667
1  BBa_C0076cinIautoinducer synthetaseForwardQ1MDW1nonenone  727
1  BBa_C0078lasIautoinducer synthetase for PAI from Pseudomonas aeruginosaForwardP33883pae:PA1432none  667
1  BBa_C0161luxIautoinducer synthetase for AHL (no LVA)ForwardP12747nonenone  585
1  BBa_C0170rhIIautoinducer synthetase for N-butyryl-HSL (BHL) and HHL (no LVA)ForwardQ02QW5nonenone  609
1  BBa_C0178lasIautoinducer synthetase for PAI from Pseudomonas aeruginosa (no LVA)ForwardP33883pae:PA1432none  609
AWBBa_K091109 LuxS     516


Degradation


More...
-?-NameProteinDescriptionDirectionUniprotKEGGE.C.SubstrateProductLength
1  BBa_C0060aiiA-LVAautoinducer inactivation enzyme from Bacillus; hydrolyzes acetyl homoserine lactoneForwardQ1WNZ5none3.1.1.-  814
1  BBa_C0160aiiAautoinducer inactivation enzyme aiiA (no LVA)ForwardQ1WNZ5none3.1.1.-  756


Translational units

Translational units begin with the RBS, the site of ribosome binding and translational initiation, and end with a stop codon, the site of translational termination. Every translational unit in the Registry consists of at least three parts, a Translational start, one or more Internal Domains including Special Internal Domains, and a Tail Domain. Thus translational units can, in some sense, be thought of as a composite part made up of three or more parts. Protein coding sequences, in contrast, begin with a start codon and end with a stop codon.

ProteinDomains.png

For more information on protein domains, see protein domains. Unfortunately, the original BioBrick assembly standard, Assembly standard 10, does not support in-frame assembly of protein domains. (Assembly standard 10 creates an 8 bp scar between adjacent parts.) Therefore, it is recommended that you use an alternate approach to assemble protein domains together to make a translational unit. There are several possible approaches to assembling protein domains including direct synthesis (preferred because it creates no scars) as well as various assembly standards. Regardless of which standard you choose, we suggest that the resulting translational unit comply with the original BioBrick assembly standard so that your parts can be assembled with most of the parts in the Registry.


Translational units should be as follows

GAATTC GCGGCCGC T TCTAGA G [RBS] [ATG ... TAA TAA] T ACTAGT A GCGGCCG CTGCAG


Although most RBSs are currently specified as separate parts in the Registry, we are now moving to a new design in which the RBS and Head domain are combined into a single part termed a Translational start. The new design has the advantage of encapsulating both ribosome binding and translational initiation within a single part. Our working hypothesis is that the new design will reduce the likelihood of unexpected functional composition problems between the RBS and coding sequence.


More...
-?-NameProteinDescriptionTagDirectionUniProtKEGGLength
A  BBa_I9026 rhlI translational unit  685
A  BBa_C0260aiiAautoinducer inactivation enzyme, AaiiA (+RBS)LVAForward  832
1  BBa_C0261luxIAHL-making Enzyme, luxI (+RBS)LVAForward  661
1  BBa_J37033 RBS + LuxR  799
AWBBa_K091138 RBS+lsrR  972
AWBBa_K091158 RBS+lsrK  1611
1  BBa_K131015 LuxPQ from Vibrio harveyi  3825
1  BBa_K131016 LuxOU from Vibrio harveyi  1945
1WBBa_K081008 luxI protein generator (TERM-)  664
1  BBa_K081009 lasI protein generator (TERM-)  688
1  BBa_K081020 cI and lasR protein generator (TERM-)  1606
AWBBa_K082007 B0030-C0070   688
AWBBa_K082008 B0032-C0070   686
AWBBa_K082010 B0034-C0070   685
AWBBa_K332033 37℃ induced RBS + tetR + double terminator  864
 WBBa_K772001 EpCAM Binding Dock: C-terminus  1159
 WBBa_K772002 EpCAM Binding Dock: N terminus  1138


Composite parts

These are composite parts related to cell-cell signalling.


More...
-?-NameTypeDescriptionLength
1WBBa_F1610Signalling3OC6HSL Sender Device798
1WBBa_F2620Signalling3OC6HSL -> PoPS Receiver1061
1WBBa_F2621Signalling3OC6HSL Receiver Device1158
1WBBa_F2622Signalling3OC6HSL Receiver Device1062
A  BBa_I0424SignallingI0404.I61012700
A  BBa_I0426SignallingI0406.I61072798
A  BBa_I0428SignallingI0408.I61062872
   BBa_I0429SignallingI0408.I61162858
1  BBa_I0460GeneratoraiiA Device (B0034.C0060.B0015)969
1WBBa_I0462GeneratorluxR Protein Generator936
   BBa_I0464SignallingLasR Protein Generator936
1  BBa_I0466SignallingRhlR Protein Generator942
   BBa_I0468SignallingCin R Protein Generator942
A  BBa_I13018SignallingLuxR Cassette under Ptet (Other)998
   BBa_I13035Signalling3OC6HSL Receiver Device with Inducible Control of LuxR and a YFP Output device3003
A  BBa_I13202Signalling3OC6HSL Sender Controlled by Lac Repressible Promoter803
U  BBa_I13203SignallingpBad.aiiA protein generator (LVA-)2129
U  BBa_I13205SignallingHSL/aiiA test construct4239
   BBa_I13206SignallingaiiA (LVA-) protein generator driven by ptet973
A  BBa_I13207SignallingHSL/aiiA test construct4142
A  BBa_I13208SignallingaiiA (LVA-) protein generator driven by plac973
   BBa_I13210SignallingLux/Cin Relaxation Oscillator5661
   BBa_I13211SignallingBiobricked version of the natural Lux quorum sensing system1964
   BBa_I13212SignallingLuxR Protein Generator Controlled by the Left Lux Promoter1095
   BBa_I13213SignallingBioBricked version of the natural Lux system with order reversed1964
AWBBa_I13261SignallingLux Receiver (I13263 with reversed part order)2044
MWBBa_I13262SignallingPoPS->PoPS Amplifier Controlled by 3OC6HSL999
AWBBa_I13263SignallingLux Receiver (HSL & R0063 driven)2044
   BBa_I13264SignallingLux based Sender/Receiver/Reporter system2713
   BBa_I13265SignallingLux based Sender/Receiver/Reporter system (LVA-)2655
   BBa_I13266SignallingLux-based Sender/Receiver Device which outputs PoPS1827
AWBBa_I13272SignallingYFP Producer Controlled by 3OC6HSL Receiver Device2083
AWBBa_I13273SignallingYFP Producer Controlled by 3OC6HSL Receiver Device1947
   BBa_I13274SignallingLux Receiver (HSL & R0011 driven)1947
   BBa_I13277SignallingPoPS->PoPS amplifier (CinR-based, HSL driven)1175
1  BBa_I1466SignallingRhlR protein generator (LVA-)884
   BBa_I1467SignallingAI-1 protein generator (LVA-)878
A  BBa_I1468GeneratorCinR protein generator 884
   BBa_I534060SignallingaiiA Protein Generator (LVA+) Controlled by a tet Repressible Promoter2187
AWBBa_I722006SignallingGFP Producer Controlled by 3OC6HSL (without Promoter)1885
A  BBa_I722011Compositerhl producer followed by a AHL acceptor2702
A BBa_I722012CompositeAHL->RoPs and mRFP producer2722
A BBa_I724000DeviceAutoinducer inactivation enzyme regulated by LuxR/HSL promoter895
AWBBa_I726031DeviceTrc-LIC1552
1WBBa_I726041DeviceSen-TIC1551
AWBBa_I726061DeviceTrc-LRY1748
1WBBa_I726071DeviceRec-RRY1748
1WBBa_I726081DeviceRec-LRY.RC2697
A  BBa_I729004CompositeSensitive AHL Receiver1920
AWBBa_I729005CompositeAHL Reporter and Quencher2650
1  BBa_I729006CompositeAHL reporter and aiia device2985
A  BBa_I732923DeviceI732907 I7329225682
1WBBa_I751250GeneratorpSB4 plac-luxI803
AWBBa_I751350GeneratorpBR322 plac-luxI803
A  BBa_I761011RegulatoryCinR, CinL and glucose controlled promotor295
   BBa_J06001SignallingTet repressible luxI generator ( LVA+ )860
   BBa_J06002SignallingTet repressible luxI generator ( LVA- )802
   BBa_J06101SignallingTet repressible lasI generator ( LVA+ )884
   BBa_J06102SignallingTet repressible lasI generator ( LVA- )826
   BBa_J06201SignallingTet repressible rhI generator (LVA+)884
   BBa_J06400Signalling3OC12HSL Receiver1147
   BBa_J06401Signalling30C12HSL Sender764
   BBa_J06402SignallingC4HSL Receiver1044
A BBa_J07043SignallingJ07012.B0015 (scFv 4-4-20.TT)899
A BBa_J07044SignallingJ07013.B0015 (scFv S101A.TT)899
A BBa_J07045SignallingJ07014.B0015 (scFv 4M5.3.TT)899
A  BBa_J13040SignallingpOmpR dependent 3OC6HSL sender device914
   BBa_J85120CompositeHigh Population->mRFP (pLac->LuxI; pLacIQ->luxR; pLux->mRFP;)2653
1WBBa_K081011GeneratorluxR protein generator under Plambda regulation (TERM-)859
1WBBa_K081015GeneratorluxI protein generator - PoPS->luxI711
1WBBa_K081019GeneratorluxR protein generator under Plambda regulation906
AWBBa_K082020GeneratorLuxR generator998
AWBBa_K082021GeneratorRhlI generator1004
AWBBa_K082023GeneratorB0034-C0070-B0015 822
AWBBa_K082029GeneratorLuxI generator860
AWBBa_K082030GeneratorluxI generator on PSB3C5860
AWBBa_K082031CompositeR0071-B0030-C0070 749
AWBBa_K082032CompositeR0071-B0032-C0070 747
1WBBa_K082035GeneratorRhlI generator884
AWBBa_K082036GeneratorLuxR & RhlI generator1890
AWBBa_K082037GeneratorRhlI & GFP generator1633
A  BBa_K091134DeviceLas Receiver with GFP reporter2048
AWBBa_K091139GeneratorRBS+lsrR+TT1109
1?BBa_K091182DevicepLasR/cI-RBS-LuxI-RBS-Mnt-TT-pMnt/tetR-RBS-LuxI-RBS-cI-TT2988
1  BBa_K091190Deviceplux/cI+RBS+lasI+RBS+Mnt+TT+pMnt/lac+RBS+lasI+RBS+cI+TT2802
1  BBa_K091203DevicepBAD-RBS-LuxR-RBS-LacI(I12)-TT2183
AWBBa_K094103Deviceplux-rbs-cheZ-terminator878
AWBBa_K094106DevicePlux-rbs-CI-terminator-plambda P(O-R12)-rbs-cheZ2521
AWBBa_K094112DeviceluxR-luxI-terminator1552
A  BBa_K116626GeneratorBBa_B0032 + LuxR + BBa_B0015937
AWBBa_K266000SignallingPAI+LasR -> LuxI (AI)963
A  BBa_K266002CodingLasR + Term918
AWBBa_K266005SignallingPAI+LasR -> LasI & AI+LuxR --| LasI819
AWBBa_K266006SignallingPAI+LasR -> LasI+GFP & AI+LuxR --| LasI+GFP1705
AWBBa_K266007SignallingComplex QS -> LuxI & LasI circuit2676
AWBBa_K332031GeneratorConstitutive promoter + 37℃ induced RBS + tetR + double terminator907
AWBBa_K332032GeneratorConstitutive promoter+37℃ induced RBS+tetR+double terminator+Ptet+RBS+GFP+double terminator1836
 WBBa_K546000SignallingLux pL controlled LuxR with lux pR autoinducing LuxI(lva tag)- AHL.1964
 WBBa_K546001CompositeLux pL controlled luxR with lux pR controlled AHL degrading enzyme AiiA(lva tag). 2135
 WBBa_K546002MeasurementLux pL controlled luxR with lux pR controlled GFP(lva tag).2080
 WBBa_K546003SignallingLux pL controlled LuxR + lux pR promoter.1158
 WBBa_K546005CompositeLux pL controlled LuxR + lux pR autoinducing LuxI (lva tag) + lux pR controlled GFP(lva tag).4052
   BBa_K574001SignallingTetR regulated by 3OC6HSL1890
   BBa_K574004Signalling3OC12HSL regulated by TetR797
   BBa_K574005Signalling3OC12HSL and YFP regulated by pBad1712
   BBa_K574006Device3OC12HSL regulated by pTet and pBad2517
 WBBa_K574009Signalling3OC12HSL -> PoPS Receiver1147
 WBBa_K772100ProjectEpCAM Detection Device2305
   BBa_S04301CodingC0079:B0015918
   BBa_T9001SignallingGFP and Producer Controlled by 3OC6HSL Receiver Device1946
1WBBa_T9002SignallingGFP Producer Controlled by 3OC6HSL Receiver Device1945


BarryCantonPhoto.jpg Barry Canton, as a graduate student in Drew Endy's lab, built and characterized the cell-cell signalling receiver BBa_F2620.