SBB13 project
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EIPCR primers for making a 6xHis_tADH1 "Part 4" part plasmid sbb13-1F: GCATCGTCTCACATCATCATCATCATCACtaactcgaggcgaatttc sbb13-2R: ATGCCGTCTCAGATGggatggagaccgactacc template: pGG062 PCR product should be 1947bp. Cut with BsmBI, ligate, plate on LB+Cam (ColE1 origin). Then when you assemble an expression plasmid, you can either use pGG062 to add the stop codon+terminator, or this new plasmid to add a 6xHis+stop+terminator.
JCAnderson 13:43, 5 February 2013 (EST) Targets for further analysis:
- dodecanol
- butane
- vanillin
- methyl caffeate
- 4-Anisaldehyde
- styrene
- tyramine
- Menadione
- mandelate
- resorcinol
- ethyl cinnamate
- phthalic acid diethyl ester
- N-acetyl-5-methoxytryptamine
- piceatannol
- aspartame
- aureusidin
- Tyr-Arg
- cetylpalmitate
- trans-1,3-dichloropropene
- nitrocyclohexane
- phenylhydrazine
- N-methyltyramine
- ethylacrylate
- 2-nitropropane
- methacrylamide
- methyl tert-butyl ether
- fluorocitrate
- p-tyrosol
- terephthalate
- L-djenkolate
- diethylamine
- acrylamide
- Anserine
- 2-tert-butyl-4-methoxyphenol
- propyl paraben
- cAMP
- Menadione
- Limonene
- Spermine
- Ethyl cinnamate
- Daidzein
- Indigo
- berberine
- cortisol
- Prednisone
- Histamine
- Octopamine
- Resorcinol
- Synephrine
- Carnosine
- Terephthalic acid:
- Vanillate
- Salicylate
- Guaiacol
- Isoniazid
- Adiponitrile
- Nerol
- ATP
- Acetone
- ascorbate
- salicylamide
- biotin
Notes
1. nothing
Examples
N-feruloyl-N-methyltyramine 1)
uuid: 1356 ec5: 1.1.1.2 rxnName: {Thermoanaerobacter ethanolicus} acetyl-CoA + NADPH -?> acetaldehyde + CoA + NADP+ <34> substrates: [7595, 7045] products: [8958, 7204, 6997],
2)
uuid: 5523 ec5: 1.14.13.11 rxnName: {Arabidopsis thaliana} (2E)-3-(3-hydroxyphenyl)prop-2-enoic acid + NADPH + H+ + O2 -?> (2E)-3-(3,4-dihydroxyphenyl)prop-2-enoic acid + NADP+ + H2O <34> substrates: [17306, 7045, 17657, 17644] products: [17322, 6997, 32503],
3)
uuid: 11734 ec5: 2.1.1.27 rxnName: {Hordeum vulgare} S-adenosyl-L-methionine + tyramine -?> N-methyltyramine + S-adenosyl-L-homocysteine <1> substrates: [4207, 15233] products: [16740, 3593],
4)
uuid: 11943 ec5: 2.1.1.68 rxnName: {Medicago sativa} S-adenosyl-L-methionine + caffeic acid -?> S-adenosyl-L-homocysteine + 4-hydroxy-3-methoxy-trans-cinnamic acid <21> substrates: [4207, 17322] (from step 2 and 4207 is marked as cofactor) products: [3593, 143],
5)
uuid: 41435 ec5: 6.2.1.34 rxnName: {Pseudomonas fluorescens} ferulic acid + CoASH + ATP -?> trans-feruloyl-CoA + products of ATP breakdown <1> substrates: [143, 7204, 944] (from step 4 and step 1) products: [9258, 18030],
6)
uuid: 12323 ec5: 2.3.1.110 rxnName: {Nicotiana tabacum} feruloyl-CoA + N-methyltyramine -?> CoA + N-feruloyl-N-methyltyramine <1> substrates: [9258, 16740] (from step 5 and 3) products: [7204, 21675]
4-bromo-threonin 1)
uuid: 38633 ec5: 4.1.2.5 rxnName: {Pseudomonas putida} glycine + bromoacetaldehyde -?> 4-bromo-threonine <24> substrates: [8990, 8927] products: [29193]
nitrocatechol sulfate
1)
uuid: 5760 ec5: 1.14.13.29 rxnName: {Rattus norvegicus} 4-nitrophenol + NAD(P)H + O2 -?> 4-nitrocatechol + NAD(P)+ + H2O <8> substrates: [13574, 7045, 17644] products: [13577, 6997, 32503],
2)
uuid: 21191 ec5: 2.8.2.2 rxnName: {Mus musculus} 3'-phosphoadenylylsulfate + p-nitrocatechol <-> adenosine 3',5'-bisphosphate + p-nitrocatechol sulfate <23> substrates: [823, 13577] products: [809, 13582]
D-4-nitrophenylserine 1)
uuid: 38606 ec5: 4.1.2.42 rxnName: {Alcaligenes xylosoxidans} 4-nitrobenzaldehyde + glycine -?> D-4-nitrophenylserine <8> substrates: [14627, 8990] products: [16275]
naringenin 3-O-glucoside 1)
uuid: 21547 ec5: 2.8.3.3 rxnName: {Pseudomonas ovalis} butyryl-CoA + malonate -?> malonyl-CoA + butanoate <1> substrates: [8019, 10006] products: [7749, 11180],
2)
uuid: 20784 ec5: 2.7.7.64 rxnName: {Pisum sativum, Glycine max, Thermus caldophilus} UTP + D-glucose 1-phosphate <-> diphosphate + UDP-glucose <2, 3, 4> substrates: [16843, 13174] products: [17603, 4291],
3)
uuid: 12674 ec5: 2.3.1.159 rxnName: {Ruta graveolens} malonyl-CoA + 4-coumaroyl-CoA -?> CoA + naringenin chalcone <6, 7> substrates: [7749, 9107] (from step 1) products: [7204, 3935],
4)
uuid: 40914 ec5: 5.5.1.6 rxnName: {Eubacterium ramulus} naringenin chalcone -?> naringenin <33> substrates: [3935] products: [3942],
5)
uuid: 16206 ec5: 2.4.1.91 rxnName: {Hippeastrum sp.} UDPglucose + naringenin -?> UDP + naringenin 3-O-glucoside <8> substrates: [4291, 3942] (from step 2 and step 4) products: [16776, 22581]
4-hydroxyphenylethanal labeled as native
L-3,4-methylenedioxyphenylserine 1)
uuid: 21458 ec5: 2.8.3.1 rxnName: {Clostridium propionicum, Clostridium propionicum Q9L3F7 UniProt} acetyl-CoA + propanoate <-> acetate + propanoyl-CoA <1, 6> substrates: [7595, 10107] products: [8960, 7794],
2)
uuid: 37991 ec5: 4.1.1.83 rxnName: {Clostridium difficile, Clostridium scatologenes} (3,4-dihydroxyphenyl)acetate + H+ -?> 4-methylcatechol + CO2 <2, 4> substrates: [16080, 17657] products: [14894, 17533],
3)
uuid: 9277 ec5: 1.3.99.2 rxnName: {Bos taurus, Clostridium acetobutylicum} propionyl-CoA + 2,6-dichlorophenolindophenol -?> 2-propenoyl-CoA + reduced acceptor <44, 51> substrates: [7794, 2893] (from step 1) products: [7748, 32490],
4)
uuid: 4202 ec5: 1.1.99.6 rxnName: {Proteus vulgaris} phenylpyruvate + reduced acceptor <-> phenyl-(R)-lactate + acceptor <3> substrates: [17302, 32490] (from step 3) products: [16380, 32477],
5)
uuid: 6993 ec5: 1.17.99.1 rxnName: {Pseudomonas putida, denitrifying bacterium} 4-methylcatechol + acceptor + H2O -?> 3,4-dihydroxybenzaldehyde + reduced acceptor <1, 12> substrates: [14894, 32477, 32503] (from step 2 and step 4) products: [14703, 32490],
6)
uuid: 38645 ec5: 4.1.2.5 rxnName: {Pseudomonas putida} glycine + L-3,4-dihydroxybenzaldehyde -?> L-3,4-methylenedioxyphenylserine <25> substrates: [8990, 14703] products: [17809]
trans-1-chloro-2-(4-hydroxyphenyl)ethylene 1)
uuid: 4350 ec5: 1.11.1.10 rxnName: {Caldariomyces fumago} trans-4-hydroxycinnamic acid + Cl- + H+ + H2O2 -?> trans-1-chloro-2-(4-hydroxyphenyl)ethylene + H2O <16> substrates: [17309, 17542, 17657, 17567] (the acid is marked as native) products: [31858, 32503]