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Commit 60067599 authored by Davide Lagoa's avatar Davide Lagoa
Browse files

new version

parent 4483ba49
#evidence pair1 pair2 "toReplaceReactant" "replacementReactant" "toReplaceProduct" "replacementProduct"
formate.*\s+dehydrogenase Formate CO2
ethylbenzene.*\s+dehydrogenase ethylbenzene (S)-1-phenylethanol "\s+2H\+\s+\(out\)" " H2O \(in\) \+ H\+ \(out\)" "" ""
Phenylacetyl-CoA.*\s+oxidoreductase Phenylacetyl-CoA Phenylglyoxylyl-CoA "\s+2H\+" " H2O" "" ""
sulfur.*\s+oxidoreductase Hydrogen sulfide + Sulfite Thiosulfate
tetrathionate.*\s+oxidoreductase 2Thiosulfate Tetrathionate "\s+2H\+" " H\+" "" ""
Arsenite.*\s+oxidase Arsenite Arsenate "\s+2H\+" " H2O" "" ""
#evidence pair1 pair2 "toReplaceReactant" "replacementReactant" "toReplaceProduct" "replacementProduct"
nitrate.*\s+reductase Nitrate Nitrite
dimethylsulfoxide.*\s+reductase Dimethyl sulfoxide Dimethyl sulfide
trimethylamine-N-oxide.*\s+reductase Trimethylamine N-oxide Trimethylamine
Biotin d-sulfoxide.*\s+reductase d-biotin d-sulfoxide Biotin
methionine oxide.*\s+reductase L-Methionine S-oxide L-Methionine
Thiosulfate.*\s+reductase Thiosulfate Hydrogen Sulfide + Sulfite
Polysulfide.*\s+reductase Thiosulfate Hydrogen Sulfide + Sulfite "\s+2H\+" " H\+" "\s+\+\s+H2O\s+\(in\)" ""
Selenate.*\s+reductase Selenate Selenite
Chlorate.*\s+reductase Chlorate Chlorite
Tetrathionate.*\s+reductase Tetrathionate 2 Thiosulfate
#KOs from this list will be searched in KEGG database. Add tc number to the entry
K23993 8.A.7.-.-
K02784 8.A.8.-.-
\ No newline at end of file
......@@ -38,7 +38,7 @@ Sr2+ =strontium(2+)$sr2+$strontium2+
NH3 =ammonia$nh3$nh4+$ammonium$ammoniumion$ammoniumions
Fe3+ =fe3+$iron3+$iron(3+)$ferriciron$ferricion$fe(iii)$ferricironion
Fe2+ =fe2+$iron(2+)$iron2+$ironion(2+)$fe(ii)$ferrousion$iron$ferrousiron$ferrousironion$ferrousironions$ironexporter
Oligopeptide =oligopeptides$oligopeptide
META:Amino-Acids-20 =oligopeptides$oligopeptide
Peptide =peptide$peptides
Peptide antibiotic =peptideantibiotic$peptideantibiotics
**Mn+ =does not exist in metacyc or any other database
......@@ -50,7 +50,7 @@ Hexose =hexose$hexoses
Triose phosphate =triosephosphoate$triose-phosphoate$triosephosphate$triose-phosphate
Siderophore =siderophore$siderophores
Endolysin =endolysin$mureinhydrolase$lysin
N-acetyl-D-glucosamine =d-n-acetyglucosamine$n-acetyglucosamine$n-acetyl-d-glucosamine$n-acetylglucosamine$acetyl-d-glucosamine$n-acetylglucosamine$-acetyl-d-glucosamine$n-acetylglucosamine
N-acetyl-D-glucosamine =d-n-acetyglucosamine$n-acetyglucosamine$n-acetyl-d-glucosamine$n-acetylglucosamine$acetyl-d-glucosamine$n-acetylglucosamine$-acetyl-d-glucosamine$n-acetylglucosamine$n-acetylglucosamine
GDP-mannose =gdp-mannose$guanosinediphosphatemannose
GMP =guanosinemonophosphate$gmp
Enterocin =enterocin$enterocinas-48
......@@ -90,7 +90,7 @@ Undecaprenyl phosphate-alpha-aminoarabinose =undecaprenylphosphate-α-aminoarabi
2-aminoethylphosphonate =2-aminoethylphosphonate
Agrocin 84 =agrocin84$agrocin
Chromate =cro42-$chromate(2-)$chromate2-$chromate$tetraoxidochromate(2−)$tetraoxidochromate(vi)$chromate(vi)
Phosphate =phosphate$pi
Phosphate =phosphate$pi$hpo42-$ho4p2-
Coenzyme A =coenzymea$coenzymesa$coa$coenzymes-a$coenzyme-a
Diphosphate =p2$diphosphate$pyrophosphate
**Acyl-Coenzyme A =fattyacyl-coa$fattyacylcoa$fatty-acyl-coa$
......@@ -182,7 +182,7 @@ Nucleobase =nucleobase$nucleobases$ucleobase$ucleobases
Toxin =toxin$toxins$toxinprotein$toxinproteins$proteintoxic$proteintoxin$proteinstoxin$proteinstoxins$proteintoxins
Drug =drug$drugs$multipledrugs
Protein =protein$misfoldedprotein$foldedprotein$proteindomain$taprotein$cterminaltailanchoredproteinwithamoderatelyhydrophobictms$proteins$pre-protein$preprotein$passengerdomain$unfoldedprotein$taxprotein$taxcarrierprotein$unfoldedproteins$tailanchored(ta)protein$tail-anchoredprotein$organicanion$organiccation$smallhydrophilicanionicsolutes$mallhydrophiliccationicsolutes
Solute =s$solute$solutes$metabolite$metabolites$molecules$molecule$substrate$substrates$s1$solute1$solutes1$metabolite1$metabolites1$molecules1$molecule1$substrate1$substrates1
Solute =solute$solutes$metabolite$metabolites$molecules$molecule$substrate$substrates$s1$solute1$solutes1$metabolite1$metabolites1$molecules1$molecule1$substrate1$substrates1
Solute2 =s2$solute2$solutes2$metabolite2$metabolites2$molecules2$molecule2$substrate2$substrates2
Sugar =sugar$sugars
Sugar-P =sugarp$sugars-p
......@@ -210,18 +210,13 @@ Adhesin =adhesin$adhesins
Hydrosulfide =hydrosulfide$hs-
Amine =amine$amines
Fe(III)hydroxamate =fe(iii)hydroxamate$fe3+-hydroxamate
alpha-Mannosylglycerate =alpha-mannosylglycerate$2-o-alpha-mannosyld-glycerate
alpha-Mannosylglycerate =alpha-mannosylglycerate$2-o-alpha-mannosyld-glycerate$2-o-alpha-mannosyld-glycerate
Ethanolamine =unchargedethanolamine$ethanolamine
Immunoglobulin A =immunoglobulina$iga
cbl =vitaminb12s$cobalamin$cbl$vitaminb12
ferric aerobactin =ferricaerobactin$fe3+-aerobactin
Hydrophobic compound =hydrophobiccompound$hydrophobiccompound
Oligopeptide =oligopeptide$oligopeptides
Mycotoxin =myxotoxins$myxotoxin$mycotoxins$mycotoxin
Dipeptide =dipeptide$dipeptides
Tripeptide =tripeptide$tripeptides
Tetrapeptide =tetrapeptide$tetrapeptides
Pentapeptide =pentapeptide$pentapeptides
Short chain amide =shortchainamide$shortchainamides$short-chainamide$short-chainamides
C4-dicarboxylate =c4dicarboxylate$c4dicarboxylates$c4-dicarboxylates$c4-dicarboxylate$c4dicarboxylate1$c4dicarboxylates1$c4-dicarboxylates1$c4-dicarboxylate1
C4-dicarboxylate2 =c4dicarboxylate2$c4dicarboxylates2$c4-dicarboxylates2$c4-dicarboxylate2
......@@ -232,4 +227,17 @@ Maltopentaose =maltopentaose$maltopentose
n-acetyl-d-mannosamine =n-acetyl-d-mannosamine$d-n-acetylmannosamine
Maltohexaose =maltohexaose$maltohexose
Maltotetraose =maltotetraose$maltotetrose
light =hv$light$hn$hnu$photon$h&nu
\ No newline at end of file
light =hv$light$hn$hnu$photon$h&nu
undecaprenyl phosphate-4-amino-4-deoxy-l-arabinose =4-amino-4-deoxy-l-arabinosephosphoundecaprenol
L-Glutamine =glutamine$lglutamine$2-aminoglutaramicacid$l-2-aminoglutaramicacid$l-glutamine$l-gln$l-glutamine$gln$glum$glumin$glutamicacid5-amide$glutamine$proglumide
L-Methionine =l-2-amino-4methylthiobutyricacid$l-methionine$l-met$l-methionine$methionine$met$methionine
Cellobiose =1-beta-d-glucopyranosyl-4-d-glucopyranose$celb$cpd-15975$cellobiose$glucoscilliroside
2-Deoxy-D-glucose =2-deoxy-d-arabino-hexose$2-deoxy-d-glucose$2-deoxyglucose$d-arabino-2-deoxyhexose$d-2-deoxyglucose
Chitobiose =chitobiose$2-(acetylamino)-4-o-[2-(acetylamino)-2-deoxy-beta-d-glucopyranosyl]-2-deoxy-beta-d-glucopyranose$cbs$diacetylchitobiose$n,n'-diacetylchitobiose$n,n'-diacetylchitobiose$n-[2-[5-acetylamino-4,6-dihydroxy-2-(hydroxymethyl)tetrahydropyran-3-yl]oxy-4,5-dihyrdoxy-6-(hydroxymethyl)tetrahydropyran-3-yl]acetamide$diacetylchitobiose$n,n'-diacetylchitobiose
chitobiose-6-phosphate =n,n'-diacetylchitobiose6'-phosphate$chitobiose-6-phosphate$chitobiose6-phosphate$diacetylchitobiose6-phosphate$diacetylchitobiose-6-phosphate
N-Acetylmuramate =2-[3-acetylamino-2,5-dihydroxy-6-(hydroxymethyl)tetrahydropyran-4-yl]oxypropanoicacid$2-acetamido-3-O-(d-1-carboxyethyl)-2-deoxy-beta-d-glucose$murnac$n-acetyl-d-muramoate$n-acetylmuramate$n-acetylmuramicacid$n-acetylmuramate$n-acetylmuramicacid$$nacmur
2-Oxoglutarate =alpha-ketoglutarate$2-ketoglutaricacid$2-oxoglutarate$2-ketoglutarate$2-ketoglutaricacid$2-oxoglutarate$2-oxoglutaric acid$2-oxopentanedionate$2-oxopentanedionicacid$oxoglutaricacid$a-ketoglutaricacid$alpha-ketoglutaric acid$alpha-ketoglutarate$alpha-ketoglutaricacid$alpha-oxoglutarate$ketoglutarate
N-Acetyl-D-glucosamine(anhydrous)N-Acetylmuramyl-tripeptide =n-acetyl-d-glucosamine(anhydrous)n-acetylmuramyl-tripeptide$anhgm3p$n-acetylglucosaminylbeta-1,4-anhydro-n-acetyl-muramyl-tripeptide
N-Ribosylnicotinamide =1-(beta-dribofuranosyl)nicotinamide$1-(beta-d-ribofuranosyl)nicotinamide$n-ribosylnicotinamide$n-ribosyl-nicotinamide$nicotinamide-beta-riboside$nicotinamideribonucleoside$nicotinamideribose$nicotinamideriboside$nicotinamide-beta-riboside$ribosylnicotinamide$nr
Nicotinamide ribonucleotide =nmn$nicotinamided-ribonucleotide$nicotinamidemononucleotide$nicotinamidenucleotide$nicotinamideribonucleotide$beta-nicotinamided-ribonucleotide$beta-nicotinamidemononucleotide$beta-nicotinamideribonucleotide$beta-nicotinamided-ribonucleotidebeta-nicotinamidemononucleotide$beta-nicotinamidenucleotide$beta-nicotinamideribonucleotide
Ala-Ala =ala-ala$d-ala-d-ala$d-alanyl-d-alanine$d-alanyl-d-alanine$dialanine$di-alanine
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