Pyrimidine metabolism
Source | ID | Pathway |
---|---|---|
PathWhiz | PW002469 | |
KEGG | 00240 |
Pathway Metabolites
YMDB ID | Name CAS Number | IUPAC Name | Formula Weight | Structure |
---|---|---|---|---|
YMDB00002 | L-Glutamine 56-85-9 | (2S)-2-amino-4-carbamoylbutanoic acid | C5H10N2O3 146.1445 | |
YMDB00003 | Urea 57-13-6 | urea | CH4N2O 60.0553 | |
YMDB00025 | Orotidylic acid 2149-82-8 | 3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]oxolan-2-yl]-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carboxylic acid | C10H13N2O11P 368.1908 | |
YMDB00027 | Ureidosuccinic acid 13184-27-5 | (2S)-2-(carbamoylamino)butanedioic acid | C5H8N2O5 176.1274 | |
YMDB00049 | Uridine 5'-monophosphate 58-97-9 | {[(2R,3S,4R,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}phosphonic acid | C9H13N2O9P 324.1813 | |
YMDB00051 | Cytidine 65-46-3 | 4-amino-1-[(2R,3S,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,2-dihydropyrimidin-2-one | C9H13N3O5 243.2166 | |
YMDB00064 | CDP 63-38-7 | [({[(2R,3S,4R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid | C9H15N3O11P2 403.1764 | |
YMDB00079 | Dihydrofolic acid 4033-27-6 | (2S)-2-[(4-{[(2-amino-4-oxo-1,4,7,8-tetrahydropteridin-6-yl)methyl]amino}phenyl)formamido]pentanedioic acid | C19H21N7O6 443.4133 | |
YMDB00082 | Carbamoylphosphate 590-55-6 | (carbamoyloxy)phosphonic acid | CH4NO5P 141.0199 | |
YMDB00085 | Flavin Mononucleotide 146-17-8 | {[(2R,3S,4S)-5-{7,8-dimethyl-2,4-dioxo-2H,3H,4H,10H-benzo[g]pteridin-10-yl}-2,3,4-trihydroxypentyl]oxy}phosphonic acid | C17H21N4O9P 456.3438 | |
YMDB00088 | Ubiquinone Q1 727-81-1 | 2,3-dimethoxy-5-methyl-6-(3-methylbut-2-en-1-yl)cyclohexa-2,5-diene-1,4-dione | C14H18O4 250.2903 | |
YMDB00098 | Uracil 66-22-8 | 1,2,3,4-tetrahydropyrimidine-2,4-dione | C4H4N2O2 112.0868 | |
YMDB00109 | Adenosine triphosphate 56-65-5 | ({[({[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C10H16N5O13P3 507.181 | |
YMDB00127 | Uridine 58-96-8 | 1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,2,3,4-tetrahydropyrimidine-2,4-dione | C9H12N2O6 244.2014 | |
YMDB00162 | 5-Thymidylic acid 365-07-1 | {[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)oxolan-2-yl]methoxy}phosphonic acid | C10H15N2O8P 322.2085 | |
YMDB00194 | Iron(3+) 20074-52-6 | iron(3+) ion | Fe 55.845 | |
YMDB00195 | Beta-Alanine 107-95-9 | 3-aminopropanoic acid | C3H7NO2 89.0932 | |
YMDB00201 | Deoxyuridine triphosphate 1173-82-6 | ({[({[(2R,3S,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3-hydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C9H15N2O14P3 468.1417 | |
YMDB00205 | dTDP 491-97-4 | {[hydroxy({[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)oxolan-2-yl]methoxy})phosphoryl]oxy}phosphonic acid | C10H16N2O11P2 402.1884 | |
YMDB00206 | dCMP 1032-65-1 | {[(2R,3S,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3-hydroxyoxolan-2-yl]methoxy}phosphonic acid | C9H14N3O7P 307.1971 | |
YMDB00212 | Uridine diphosphate glucose 133-89-1 | [({[(2R,3S,4R,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]({[(2R,3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy})phosphinic acid | C15H24N2O17P2 566.3018 | |
YMDB00219 | Pyrophosphate 14000-31-8 | (phosphonooxy)phosphonic acid | H4O7P2 177.9751 | |
YMDB00221 | dUMP 964-26-1 | {[(2R,3S,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3-hydroxyoxolan-2-yl]methoxy}phosphonic acid | C9H13N2O8P 308.1819 | |
YMDB00271 | L-Glutamic acid 56-86-0 | (2S)-2-aminopentanedioic acid | C5H9NO4 147.1293 | |
YMDB00279 | Cytidine triphosphate 65-47-4 | ({[({[(2R,3S,4R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C9H16N3O14P3 483.1563 | |
YMDB00307 | Uridine 5'-diphosphate 58-98-0 | [({[(2R,3S,4R,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid | C9H14N2O12P2 404.1612 | |
YMDB00326 | Uridine triphosphate 63-39-8 | ({[({[(2R,3S,4R,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C9H15N2O15P3 484.1411 | |
YMDB00379 | Iron(2+) 15438-31-0 | lambda2-iron(2+) ion | Fe 55.845 | |
YMDB00396 | L-Dihydroorotic acid 5988-19-2 | (4S)-2,6-dioxo-1,3-diazinane-4-carboxylic acid | C5H6N2O4 158.1121 | |
YMDB00402 | Phosphoribosyl pyrophosphate 7540-64-9 | [({[(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]oxolan-2-yl]oxy}(hydroxy)phosphoryl)oxy]phosphonic acid | C5H13O14P3 390.0696 | |
YMDB00405 | Orotic acid 65-86-1 | 2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carboxylic acid | C5H4N2O4 156.0963 | |
YMDB00406 | Cytidine monophosphate 63-37-6 | {[(2R,3S,4R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}phosphonic acid | C9H14N3O8P 323.1965 | |
YMDB00415 | UDP-D-glucose 133-89-1 | [({[(2R,3S,4R,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]({[(3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy})phosphinic acid | C15H24N2O17P2 566.3018 | |
YMDB00423 | Ammonium 14798-03-9 | azanium | H4N 18.0385 | |
YMDB00504 | 2'-Deoxycytidine 951-77-9 | 4-amino-1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,2-dihydropyrimidin-2-one | C9H13N3O4 227.2172 | |
YMDB00505 | 2'-Deoxyguanosine 2564-35-4 | 2-amino-9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-6,9-dihydro-1H-purin-6-one | C10H13N5O4 267.2413 | |
YMDB00507 | Thymidine 50-89-5 | 1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-methyl-1,2,3,4-tetrahydropyrimidine-2,4-dione | C10H14N2O5 242.2286 | |
YMDB00508 | 2'-Deoxyuridine 951-78-0 | 1-[(4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,2,3,4-tetrahydropyrimidine-2,4-dione | C9H12N2O5 228.202 | |
YMDB00558 | GTP 86-01-1 | ({[({[(2R,3S,4R,5R)-5-(2-amino-6-oxo-6,9-dihydro-1H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C10H16N5O14P3 523.1804 | |
YMDB00651 | Cytosine 71-30-7 | 6-amino-1,2-dihydropyrimidin-2-one | C4H5N3O 111.102 | |
YMDB00658 | dCTP 2056-98-6 | ({[({[(2R,3S,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3-hydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C9H16N3O13P3 467.1569 | |
YMDB00661 | 2-deoxy-D-ribose 533-67-5 | (3S,4R)-3,4,5-trihydroxypentanal | C5H10O4 134.1305 | |
YMDB00663 | 2-deoxy-D-ribofuranose 1-phosphate 17210-42-3 | {[(4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}phosphonic acid | C5H11O7P 214.1104 | |
YMDB00744 | dGTP 2564-35-4 | ({[({[(2R,3S,5R)-5-(2-amino-6-oxo-6,9-dihydro-1H-purin-9-yl)-3-hydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid | C10H16N5O13P3 507.181 | |
YMDB00745 | dTTP 365-08-2 | {[hydroxy({[hydroxy({[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)oxolan-2-yl]methoxy})phosphoryl]oxy})phosphoryl]oxy}phosphonic acid | C10H17N2O14P3 482.1683 | |
YMDB00746 | dUDP 4208-67-7 | [({[(2R,3S,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3-hydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid | C9H14N2O11P2 388.1618 | |
YMDB00780 | Pseudouridine 5'-phosphate 1157-60-4 | {[(2R,3S,4R,5S)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}phosphonic acid | C9H13N2O9P 324.1813 | |
YMDB00782 | potassium atom | potassium | K 39.0983 | |
YMDB00862 | hydron 12408-02-5 | hydron | H 1.00794 | |
YMDB00885 | Thymine 65-71-4 | 5-methyl-1,2,3,4-tetrahydropyrimidine-2,4-dione | C5H6N2O2 126.1133 | |
YMDB00890 | water 7732-18-5 | water | H2O 18.0153 | |
YMDB00896 | L-Aspartic acid 56-84-8 | (2S)-2-aminobutanedioic acid | C4H7NO4 133.1027 | |
YMDB00907 | phosphate 14265-44-2 | phosphoric acid | O4P 94.9714 | |
YMDB00912 | Carbon dioxide 124-38-9 | methanedione | CO2 44.0095 | |
YMDB00914 | ADP 58-64-0 | [({[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid | C10H15N5O10P2 427.2011 | |
YMDB00916 | dCDP 800-73-7 | [({[(2R,3S,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3-hydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid | C9H15N3O10P2 387.177 | |
YMDB01008 | N-Carbamoyl-L-aspartate 13184-27-5 | C5H6N2O5 174.1115 | ||
YMDB01016 | (S)-Dihydroorotate 5988-19-2 | C5H5N2O4 157.1042 | ||
YMDB01520 | Magnesium 7439-95-4 | magnesium(2+) ion | Mg 24.305 | |
YMDB01527 | Zinc 7440-66-6 | zinc(2+) ion | Zn 65.409 | |
YMDB16115 | 4,5-Dihydroorotic acid | 2,6-dioxo-1,3-diazinane-4-carboxylic acid | C5H6N2O4 158.1121 | |
YMDB16117 | Potassium | potassium(1+) ion | K 39.0983 | |
YMDB16118 | Hydrogen carbonate | carbonic acid | CHO3 61.0168 | |
YMDB16248 | QH(2) | 2,3-dimethoxy-5-methyl-6-(3-methylbut-2-en-1-yl)benzene-1,4-diol | C14H20O4 252.3062 | |
YMDB16252 | 4Fe-4S | tetrakis(lambda1-iron(1+) ion) tetrasulfane tetrasulfanide | Fe4H12S8 491.96 | |
YMDB16279 | 5,10-methenyltetrahydrofolate mono-L-glutamate | (6aR)-3-amino-8-(4-{[(1S)-1,3-dicarboxypropyl]carbamoyl}phenyl)-1-oxo-1H,2H,5H,6H,6aH,7H,8H-10lambda5-imidazo[1,5-f]pteridin-10-ylium | C20H20N7O6 454.424 |
Pathway Proteins
Uniprot ID | Gene Name Locus | Name | Type | Metabolites |
---|---|---|---|---|
P07258 | CPA1 YOR303W | Carbamoyl-phosphate synthase arginine-specific small chain | Enzyme | |
P07259 | URA2 YJL130C | Protein URA1 | Enzyme | |
P03965 | CPA2 YJR109C | Carbamoyl-phosphate synthase arginine-specific large chain | Enzyme | |
P28274 | URA7 YBL039C | CTP synthase 1 | Enzyme | |
P38627 | URA8 YJR103W | CTP synthase 2 | Enzyme | |
P13298 | URA5 YML106W | Orotate phosphoribosyltransferase 1 | Enzyme | |
P30402 | URA10 YMR271C | Orotate phosphoribosyltransferase 2 | Enzyme | |
P03962 | URA3 YEL021W | Orotidine 5'-phosphate decarboxylase | Enzyme | |
P20051 | URA4 YLR420W | Dihydroorotase | Enzyme | |
Q05788 | PNP1 YLR209C | Purine nucleoside phosphorylase | Enzyme | |
Q12084 | YDR020C | Putative uridine kinase YDR020C | Enzyme | |
P40009 | YND1 YER005W | Golgi apyrase | Enzyme | |
P27515 | URK1 YNR012W | Uridine kinase | Enzyme | |
Q06549 | CDD1 YLR245C | Cytidine deaminase | Enzyme | |
P09938 | RNR2 YJL026W | Ribonucleoside-diphosphate reductase small chain 1 | Enzyme | |
P36010 | YNK1 YKL067W | Nucleoside diphosphate kinase | Enzyme | |
P21524 | RNR1 YER070W | Ribonucleoside-diphosphate reductase large chain 1 | Enzyme | |
P06785 | TMP1 YOR074C | Thymidylate synthase | Enzyme | |
Q12178 | FCY1 YPR062W | Cytosine deaminase | Enzyme | |
P06773 | DCD1 YHR144C | Deoxycytidylate deaminase | Enzyme | |
P00572 | CDC8 YJR057W | Thymidylate kinase | Enzyme | |
Q12273 | TY1B-OL YOL103W-B | Transposon Ty1-OL Gag-Pol polyprotein | Transporter | |
P33317 | DUT1 YBR252W | Deoxyuridine 5'-triphosphate nucleotidohydrolase | Enzyme | |
Q12113 | TY2B-OR1 YOR192C-B | Transposon Ty2-OR1 Gag-Pol polyprotein | Enzyme | |
P49723 | RNR4 YGR180C | Ribonucleoside-diphosphate reductase small chain 2 | Enzyme | |
P28272 | URA1 YKL216W | Dihydroorotate dehydrogenase | Enzyme | |
P29509 | TRR1 YDR353W | Thioredoxin reductase 1 | Enzyme | |
P38816 | TRR2 YHR106W | Thioredoxin reductase 2, mitochondrial | Enzyme | |
P18562 | FUR1 YHR128W | Uracil phosphoribosyltransferase | Enzyme | |
Q04179 | URH1 YDR400W | Uridine nucleosidase | Enzyme | |
P21672 | RNR3 | Ribonucleoside-diphosphate reductase large chain 2 | Enzyme |