Metabolic Modeling Tutorial
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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
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MetaCyc Reactions Class: tRNA-Reactions

Summary:
Reactions in which at least one substrate is a tRNA or a modified tRNA.

Parent Classes:
RNA-Reactions

Child classes:
tRNA-Charging-Reactions (27)

Instances:
1.1.1.-: a 5,6-dihydrouridine in tRNA + NADP+ ← a uridine in tRNA + NADPH + H+ ,
1.2.1.70: glutamate-1-semialdehyde + tRNAGlu + NADP+ ← L-glutamyl-tRNAGlu + NADPH ,
1.3.1.88: a 5,6-dihydrouracil16 in tRNA + NAD(P)+ ← a uracil16 in tRNA + NAD(P)H + H+ ,
1.3.1.88: a 5,6-dihydrouracil17 in tRNA + NAD(P)+ ← a uracil17 in tRNA + NAD(P)H + H+ ,
1.3.1.89: a 5,6-dihydrouracil47 in tRNA + NAD(P)+ ← a uracil47 in tRNA + NAD(P)H + H+ ,
1.3.1.90: a 5,6-dihydrouracil20a in tRNA + NAD(P)+ ← a uracil20a in tRNA + NAD(P)H + H+ ,
1.3.1.90: a 5,6-dihydrouracil20b in tRNA + NAD(P)+ ← a uracil20b in tRNA + NAD(P)H + H+ ,
1.3.1.91: a 5,6-dihydrouracil20 in tRNA + NAD(P)+ ← a uracil20 in tRNA + NAD(P)H + H+ ,
1.17.99.a: a queuosine34 in tRNA + an oxidized electron acceptor + H2O ← an epoxyqueuosine34 in tRNA + a reduced electron acceptor ,
2.1.1.33: guanine46 in tRNA + S-adenosyl-L-methionine → N7-methylguanine46 in tRNA + S-adenosyl-L-homocysteine ,
2.1.1.34: a guanosine18 in tRNA + S-adenosyl-L-methionine → a 2'-O-methylguanosine18 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.35: a uracil54 in tRNA + S-adenosyl-L-methionine → a 5-methyluracil54 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.55: an adenine in tRNA + S-adenosyl-L-methionine → S-adenosyl-L-homocysteine + an N6-methyladenine in tRNA + H+ ,
2.1.1.61: a tRNA containing 5-aminomethyl-2-thiouridine + S-adenosyl-L-methionine → S-adenosyl-L-homocysteine + a 5-methylaminomethyl-2-thiouridine in tRNA + 2 H+ ,
2.1.1.74: a 5,10-methylene-tetrahydrofolate + a uracil54 in tRNA + FADH2 = a tetrahydrofolate + a 5-methyluracil54 in tRNA + FAD + H+ ,
2.1.1.200: a cytidine 32 in tRNA + S-adenosyl-L-methionine → a 2'-O-methylcytidine32 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.200: a uridine32 in tRNA + S-adenosyl-L-methionine → a 2'-O-methyluridine32 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.202: S-adenosyl-L-methionine + a cytosine34 in tRNA precursor → S-adenosyl-L-homocysteine + a 5 methylcytosine34 in tRNA precursor ,
2.1.1.202: S-adenosyl-L-methionine + a cytosine40 in tRNA precursor → S-adenosyl-L-homocysteine + a 5 methylcytosine40 in tRNA precursor ,
2.1.1.202: S-adenosyl-L-methionine + a cytosine48 in tRNA → S-adenosyl-L-homocysteine + a 5-methylcytosine48 in tRNA + H+ ,
2.1.1.202: S-adenosyl-L-methionine + a cytosine49 in tRNA → S-adenosyl-L-homocysteine + a 5-methylcytosine49 in tRNA + H+ ,
2.1.1.203: S-adenosyl-L-methionine + a cytosine34 in tRNA precursor → S-adenosyl-L-homocysteine + a 5 methylcytosine34 in tRNA precursor ,
2.1.1.204: a cytosine38 in tRNA + S-adenosyl-L-methionine → a 5-methylcytosine38 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.205: a cytidine32/guanosine34 in tRNA + S-adenosyl-L-methionine → a 2'-O-methylcytidine32/2-O-methylguanosine34 in tRNA + S-adenosyl-L-homocysteine ,
2.1.1.206: a cytidine 56 in tRNA + S-adenosyl-L-methionine → a 2-O-methylcytidine56 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.207: a cytidine34 in tRNA + S-adenosyl-L-methionine → a 2'-O-methylcytidine34 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.207: a 5-carboxymethylaminomethyluridine34 in tRNALeu + S-adenosyl-L-methionine → a 5-carboxymethylaminomethyl-2'-O-methyluridine34 in tRNALeu + S-adenosyl-L-homocysteine + H+ ,
2.1.1.211: a uridine44 in tRNAser + S-adenosyl-L-methionine → a 2'-O-methyluridine44 in tRNAser + S-adenosyl-L-homocysteine + H+ ,
2.1.1.213: a guanine10 in tRNA + 2 S-adenosyl-L-methionine → N2-dimethylguanine10 in tRNA + 2 S-adenosyl-L-homocysteine + 2 H+ ,
2.1.1.214: a guanine10 in tRNA + S-adenosyl-L-methionine → an N2-methylguanine10 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.215: guanine26/guanine27 in tRNA + S-adenosyl-L-methionine → N2-methylguanine26/guanine27 in tRNA + S-adenosyl-L-homocysteine ,
2.1.1.215: N2-methylguanine26/guanine27 in tRNA + S-adenosyl-L-methionine → N2 dimethylguanine26/guanine27 in tRNA + S-adenosyl-L-homocysteine ,
2.1.1.215: N2 dimethylguanine26/guanine27 in tRNA + S-adenosyl-L-methionine → N2-dimethylguanine26/N2-methylguanine27 + S-adenosyl-L-homocysteine ,
2.1.1.215: N2-dimethylguanine26/N2-methylguanine27 + S-adenosyl-L-methionine → N2-dimethylguanine26/N2-dimethylguanine27 + S-adenosyl-L-homocysteine ,
2.1.1.215: guanine26/guanine27 in tRNA + 4 S-adenosyl-L-methionine → N2-dimethylguanine26/N2-dimethylguanine27 + 4 S-adenosyl-L-homocysteine ,
2.1.1.216: a guanine26 in tRNA + S-adenosyl-L-methionine → an N2-methylguanine26 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.216: S-adenosyl-L-methionine + an N2-methylguanine26 in tRNA → S-adenosyl-L-homocysteine + an N2dimethylguanine26 in tRNA + H+ ,
2.1.1.216: a guanine26 in tRNA + 2 S-adenosyl-L-methionine → an N2dimethylguanine26 in tRNA + 2 S-adenosyl-L-homocysteine + 2 H+ ,
2.1.1.217: an adenine22 in tRNA + S-adenosyl-L-methionine → N1-methyladenine22 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.218: an adenine9 in tRNA + S-adenosyl-L-methionine → N1-methyladenine9 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.219: an adenine57/adenine58 in tRNA + 2 S-adenosyl-L-methionine → N1-methyladenine57/N1-methyladenine58 in tRNA + 2 S-adenosyl-L-homocysteine ,
2.1.1.220: an adenine58 in tRNA + S-adenosyl-L-methionine → S-adenosyl-L-homocysteine + an N1-methyladenine58 in tRNA + H+ ,
2.1.1.221: guanine9 in tRNA + S-adenosyl-L-methionine → N1-methylguanine9 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.223: S-adenosyl-L-methionine + adenine37 in tRNA1valS-adenosyl-L-homocysteine + N6-methyladenine37 in tRNA1val + H+ ,
2.1.1.225: S-adenosyl-L-methionine + a cytidine4 in tRNAProS-adenosyl-L-homocysteine + a 2'-O-methylcytidine4 in tRNAPro + H+ ,
2.1.1.225: S-adenosyl-L-methionine + a cytidine4 in tRNAGly(GCC) → S-adenosyl-L-homocysteine + a 2'-O-methylcytidine4 in tRNAGly(GCC) ,
2.1.1.225: S-adenosyl-L-methionine + an adenosine4 in tRNAHisS-adenosyl-L-homocysteine + a 2'-O-methyladenosine4 in tRNAHis + H+ ,
2.1.1.228: guanine37 in tRNA + S-adenosyl-L-methionine → N1-methylguanine37 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.228: guanine37 in tRNAPhe + S-adenosyl-L-methionine → N1-methylguanine37 in tRNAPhe + S-adenosyl-L-homocysteine + H+ ,
2.1.1.229: a carboxymethyluridine34 in tRNA + S-adenosyl-L-methionine → a 5-(2-methoxy-2-oxoethyl)uridine34 in tRNA + S-adenosyl-L-homocysteine ,
2.1.1.256: a guanine6 in tRNA + S-adenosyl-L-methionine → an N2-methylguanine6 in tRNA + S-adenosyl-L-homocysteine + H+ ,
2.1.1.268: a cytosine32 in tRNAthr + S-adenosyl-L-methionine → an N3-methylcytosine32 in tRNAthr + S-adenosyl-L-homocysteine ,
2.1.1.268: a cytosine32 in tRNASer + S-adenosyl-L-methionine → an N3-methylcytosine32 in tRNASer + S-adenosyl-L-homocysteine ,
2.1.1.290: 7-[(3S)-(3-amino-3-carboxypropyl)]-wyosine37 in tRNAPhe + S-adenosyl-L-methionine → 7-[(3S)-4-methoxy-(3-amino-3-carboxypropyl)]-wyosine37 in tRNAPhe + S-adenosyl-L-homocysteine ,
2.1.1.290: 7-(2-hydroxy-3-amino-3-carboxypropyl)-wyosine37 in tRNAPhe + S-adenosyl-L-methionine → 7-[4-methoxy-(2-hydroxy-3-amino-3-carboxypropyl)]-wyosine37 in tRNAPhe + S-adenosyl-L-homocysteine ,
2.1.1.-: wyosine37 in tRNAPhe + S-adenosyl-L-methionine → 7-methylwyosine37 in tRNAPhe + S-adenosyl-L-homocysteine + H+ ,
2.1.1.-: 4-demethylwyosine37 in tRNAPhe + S-adenosyl-L-methionine → wyosine37 in tRNAPhe + S-adenosyl-L-homocysteine + H+ ,
2.1.1.-: isowyosine37 in tRNAPhe + S-adenosyl-L-methionine → 7-methylwyosine37 in tRNAPhe + S-adenosyl-L-homocysteine + H+ ,
2.1.1.-: 4-demethylwyosine37 in tRNAPhe + S-adenosyl-L-methionine → isowyosine37 in tRNAPhe + S-adenosyl-L-homocysteine + H+ ,
2.1.2.9: an N10-formyl-tetrahydrofolate + L-methionyl-tRNAfmet → a tetrahydrofolate + N-formyl-L-methionyl-tRNAfmet ,
2.3.1.193: a cytidine34 in tRNAmet + ATP + acetyl-CoA + H2O → [elongator tRNAmet]-N4-acetylcytidine34 + ADP + coenzyme A + phosphate + H+ ,
2.3.2.3: an L-1-phosphatidyl-glycerol + L-lysyl-tRNAlys → 3-O-L-lysyl-1-O-phosphatidylglycerol + tRNAlys + H+ ,
2.3.2.6: a protein + L-leucyl-tRNAleu = tRNAleu + L-leucyl-[protein] + H+ ,
2.3.2.8: a protein + L-arginyl-tRNAarg = a [protein] with an N-terminal L-arginine + tRNAarg + H+ ,
2.3.2.10: UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysyl-D-alanyl-D-alanine + L-alanyl-tRNAala → UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-N6-(L-alanyl)-L-lysyl-D-alanyl-D-alanine + tRNAala + 2 H+ ,
2.3.2.11: L-alanyl-tRNAala + an L-1-phosphatidyl-glycerol = tRNAala + 3-O-L-alanyl-1-O-phosphatidylglycerol ,
2.3.2.12: a peptidyl tRNA + a charged tRNA = a tRNA + a peptidyl aminoacyl tRNA ,
2.3.2.16: ditrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-γ-D-isoglutaminyl-L-lysyl-D-alanyl-D-alanine + L-alanyl-tRNAaladitrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-γ-D-isoglutaminyl-N6-(L-alanyl)-L-lysyl-D-alanyl-D-alanine + tRNAala ,
2.3.2.20: L-leucyl-tRNAleu + L-phenylalanyl-tRNAphe = tRNAleu + tRNAphe + cyclo(L-leucyl-L-phenylalanyl) ,
2.3.2.21: 2 L-tyrosyl-tRNAtyr → 2 tRNAtyr + cyclo-L-tyrosyl-L-tyrosyl + 2 H+ ,
2.3.2.21: L-seryl-tRNAser + L-tyrosyl-tRNAtyr = cyclo-L-tyrosyl-L-tyrosyl + tRNAtyr + tRNAser + 2 H+ ,
2.3.2.22: 2 L-leucyl-tRNAleu → cyclo(L-leucyl-L-leucyl) + 2 tRNAleu + 2 H+ ,
2.3.2.-: UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-N6-(L-alanyl)-L-lysyl-D-alanyl-D-alanine + L-seryl-tRNAser → UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-N6-(L-alanyl-L-seryl)-L-lysyl-D-alanyl-D-alanine + tRNAser + 2 H+ ,
2.3.2.-: ditrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-γ-D-isoglutaminyl-N6-(L-alanyl)-L-lysyl-D-alanyl-D-alanine + L-alanyl-tRNAala → UDP-N-acetylmuramoyl-L-alanyl-D-isglutaminyl-N6-(L-alanyl-L-alanyl)-L-lysyl-D-alanyl-D-alanine + tRNAala ,
2.4.1.110: queuosine at position 34 of a tRNAAsp + GDP-α-D-mannose = D-mannosyl-5'-O-β-queuosine at position 34 of a tRNAAsp + GDP + H+ ,
2.4.1.-: queuosine at position 34 of a tRNAAsp + ATP + L-glutamate → glutamyl-queuosine at position 34 of a tRNAAsp + AMP + diphosphate + 2 H+ ,
2.4.2.29: a guanine34 in tRNA + queuine + H+ = a queuosine34 in tRNA + guanine ,
2.4.2.29: a guanine34 in tRNA + preQ1 → a 7-aminomethyl-7-deazaguanosine34 in tRNA + guanine ,
2.4.2.48: guanine at position 15 of an archaeal tRNA + preQ0 → preQ0 at position 15 of an archaeal tRNA + guanine ,
2.4.99.17: a 7-aminomethyl-7-deazaguanosine34 in tRNA + S-adenosyl-L-methionine → an epoxyqueuosine34 in tRNA + adenine + L-methionine + 2 H+ ,
2.5.1.25: a uridine in tRNA + S-adenosyl-L-methionine = a tRNA 3-(3-amino-3-carboxypropyl)-uridine + S-methyl-5'-thioadenosine + H+ ,
2.5.1.73: O-phospho-L-seryl-tRNACys + hydrogen sulfide → L-cysteinyl-tRNAcys + phosphate ,
2.5.1.75: dimethylallyl diphosphate + an adenosine37 in tRNA → N6-dimethylallyladenosine37 in tRNA + diphosphate ,
2.7.1.160: a 2'-phospho-[ligated tRNA] + NAD+ → an uncharged tRNA + ADP ribose 1'',2''-cyclic phosphate + nicotinamide + H2O ,
2.7.1.164: L-seryl-tRNAsec + ATP ↔ O-phospho-L-seryl-tRNASec + ADP ,
2.7.7.56: a tRNA precursor with a short 3' extension + n phosphate → an uncharged tRNA + n a ribonucleoside diphosphate ,
2.7.7.56: RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate ,
2.7.7.72: a tRNA precursor + 2 CTP + ATP → a tRNA containing a 3' CCA end + 3 diphosphate ,
2.7.7.79: p-tRNAHis + ATP + GTP = pppGp-tRNAHis + AMP + diphosphate ,
2.7.7.79: p-tRNAHis + ATP = App-tRNAHis + diphosphate ,
2.7.7.79: App-tRNAHis + GTP = pppGp-tRNAHis + AMP ,
2.8.1.4: 'activated' tRNA + L-cysteine = L-serine + tRNA containing a thionucleotide ,
2.9.1.1: selenophosphate + L-seryl-tRNAsec → L-selenocysteinyl-tRNAsec + phosphate + H+ ,
2.9.1.2: O-phospho-L-seryl-tRNASec + selenophosphate + H2O → L-selenocysteinyl-tRNAsec + 2 phosphate + H+ ,
3.1.1.29: an N-modified aminoacyl-tRNA + H2O → a tRNA + an N-modified amino acid + 2 H+ ,
3.1.1.29: L-asparaginyl-tRNAasn + H2O → L-asparagine + tRNAasn + 2 H+ ,
3.1.1.96: a D-aminoacyl-tRNA + H2O → a D-amino acid + a tRNA + 2 H+ ,
3.1.13.1: mutated tRNA + n H2O → n a nucleoside 5'-monophosphate ,
3.1.13.5: a tRNA precursor + H2O → a tRNA + a nucleoside 5'-monophosphate ,
3.1.13.5: a tRNA precursor with a short 3' extension → an uncharged tRNA + n a nucleoside 5'-monophosphate ,
3.1.26.5: a tRNA precursor with a 5' extension + H2O → an uncharged tRNA + a single-stranded RNA ,
3.5.1.27: an N-formyl-L-methionylaminoacyl-tRNA + H2O → a L-methionylaminoacyl-tRNA + formate + H+ ,
3.5.4.34: a adenine37 in tRNAala + H+ + H2O = a hypoxanthine37 in tRNAala + ammonium ,
3.5.4.-: an adenosine34 in [tRNAArg2] + H+ + H2O → an inosine34 in [tRNAArg2] + ammonium ,
5.4.99.12: a tRNA uridine38-40 → a pseudouridine38-40 in tRNA ,
5.4.99.42: a uridine31 in tRNA = a pseudouridine31 in tRNA ,
5.4.99.44: mitochondrial tRNA uridine 27/28 = mitochondrial tRNA pseudouridine 27/28 ,
5.4.99.45: a tRNA uridine38/39 = a pseudouridine38/39 in tRNA ,
5.4.99.-: a uridine54 in tRNA = a pseudouridine54 in tRNA ,
6.3.4.19: a cytidine34 in tRNAIle2 + L-lysine + ATP → a lysidine34 in tRNAIle2 + AMP + diphosphate + 2 H+ ,
6.3.5.6: L-glutamine + L-aspartyl-tRNAasn + ATP + H2O → L-glutamate + L-asparaginyl-tRNAasn + ADP + phosphate + H+ ,
6.3.5.7: L-glutamine + L-glutamyl-tRNAGln + ATP + H2O → L-glutamate + L-glutaminyl-tRNAgln + ADP + phosphate + H+ ,
6.5.1.-: a 5' half-tRNA molecule with a 2',3' cyclic phosphate on its 3' end + a 3' half-tRNA molecule with a hydroxyl on its 5' end + ATP → a 2'-phospho-[ligated tRNA] + AMP + diphosphate ,
cis-hydroxy-prenyl-tRNA → cis-zeatin riboside monophosphate ,
N6-dimethylallyladenosine37 in tRNA + a reduced electron acceptor + oxygen → cis-hydroxy-prenyl-tRNA + an oxidized electron acceptor + H2O ,
an N2-methylguanine10 in tRNA + S-adenosyl-L-methionine → N2-dimethylguanine10 in tRNA + S-adenosyl-L-homocysteine + H+ ,
a guanine10 in tRNA + S-adenosyl-L-methionine → an N2-methylguanine10 in tRNA + S-adenosyl-L-homocysteine + H+


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Please cite the following article in publications resulting from the use of MetaCyc: Caspi et al, Nucleic Acids Research 42:D459-D471 2014
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