Small Molecule Enzymes in E. coli - Pathway Dataset Small Molecule Enzymes in E. coli - Pathway DatasetThe 'npl' files list reaction frames. In EcoCyc, these are the constituent parts of pathways. To identify the enzymes involved withtin a particular reaction frame, visit the following web page: http://ecocyc.org:1555/ECOLI/new-image?type=REACTION&object=REACTION-OF-INTEREST-RXN (replacing REACTION-OF-INTEREST-RXN with the relevant reaction identifier).
For example, to identify the enzymes involved in reaction frame GAPOXNPHOSPHN-RXN visit http://ecocyc.org:1555/ECOLI/new-image?type=REACTION&object=GAPOXNPHOSPHN-RXN.
Certain of `our' reaction frames were formed by merging two or more EcoCyc reaction frames. Such reaction frames always end with '-STURXN'. To obtain information about these frames, remove the '-STURXN', split the string at the '_' characters and append '-RXN' to each obtained fragment. For example, ACETALD-DEHYDROG_ALCOHOL-DEHYDROG-STURXN is composed of reaction frames ACETALD-DEHYDROG-RXN and ALCOHOL-DEHYDROG-RXN both of which can be looked up as indicated in the previous paragraph.
| Pathway Name | Pathway Descriptions | EcoCyc Pathway(s) |
| ARABCAT-PWY | L-arabinose catabolism | ARABCAT-PWY |
| DARABCAT-PWY | D-arabinose catabolism | DARABCAT-PWY |
| GLUTATHIONESYN-PWY | glutathione biosynthesis | GLUTATHIONESYN-PWY |
| GALACTITOLCAT-PWY | galactitol catabolism | GALACTITOLCAT-PWY |
| ELECTRON-TRANSPORT-2_ANA-ELECT-TRANS-PWY | aerobic electron transfer and anaerobic electron transfer | ELECTRON-TRANSPORT-2, ANA-ELECT-TRANS-PWY |
| PROPIONMET-PWY | propionate metabolism, methylmalonyl pathway | PROPIONMET-PWY |
| NADPHOS-DEPHOS-PWY | NAD phosphorylation and dephosphorylation | NADPHOS-DEPHOS-PWY |
| AMMASSIM-PWY | ammonia assimilation cycle | AMMASSIM-PWY |
| PROUT-PWY | proline utilization | PROUT-PWY |
| GLUCARGALACTSUPER-PWY | D-glucarate and D-galactarate catabolism super-pathway | GLUCARGALACTSUPER-PWY |
| LYXMET-PWY | L-lyxose metabolism | LYXMET-PWY |
| XYLCAT-PWY | xylose catabolism | XYLCAT-PWY |
| AERESPDON-PWY_ANARESPDON-PWY | aerobic respiration, electron donors reaction list and anaerobic respiration, electron donors reaction list | AERESPDON-PWY, ANARESPDON-PWY |
| ECASYN-PWY | enterobacterial common antigen biosynthesis | ECASYN-PWY |
| TRYPDEG-PWY | tryptophan utilization | TRYPDEG-PWY |
| PYRIDOXSYN-PWY | pyridoxal 5'-phosphate biosynthesis | PYRIDOXSYN-PWY |
| PHOS-PWY | phosphatidic acid and phospholipid biosynthesis | PHOS-PWY |
| TREDEGLOW-PWY | trehalose degradation, low osmolarity | TREDEGLOW-PWY |
| ASPASN-PWY | asparagine. | ASPASN-PWY |
| GLUCOSE1PMETAB-PWY | glucose 1-phosphate metabolism | GLUCOSE1PMETAB-PWY |
| FASYN-INITIAL-PWY | fatty acid biosynthesis, initial steps | FASYN-INITIAL-PWY |
| AST-PWY | arginine catabolism | AST-PWY |
| PYRNUCYC-PWY_PYRIDNUCSYN-PWY | pyridine nucleotide cycling and pyridine nucleotide synthesis | PYRNUCYC-PWY, PYRIDNUCSYN-PWY |
| PENTOSE-P-PWY | pentose phosphate pathway | PENTOSE-P-PWY |
| DETOX1-PWY | removal of superoxide radicals | DETOX1-PWY |
| THIOREDOX-PWY | thioredoxin pathway | THIOREDOX-PWY |
| PYRUVOX-PWY | pyruvate oxidation pathway | PYRUVOX-PWY |
| FASYN-ELONG-PWY_UNSAT-FA-ELONG-PWY | fatty acid elongation, saturated and fatty acid elongation, unsaturated | FASYN-ELONG-PWY, UNSAT-FA-ELONG-PWY |
| FUC-RHAMCAT-PWY_METHGLYUT-PWY | fucose and rhamnose catabolism and methylglyoxal metabolism | FUC-RHAMCAT-PWY, METHGLYUT-PWY |
| RIBOSYN2-PWY | riboflavin, FMN and FAD biosynthesis | RIBOSYN2-PWY |
| CARNMET2-PWY | carnitine metabolism | CARNMET2-PWY |
| GLUT-REDOX-PWY | glutathione-glutaredoxin redox reactions | GLUT-REDOX-PWY |
| GLYCEROLMETAB-PWY | glycerol metabolism | GLYCEROLMETAB-PWY |
| BIOTIN-SYNTHESIS-PWY | biotin biosynthesis | BIOTIN-SYNTHESIS-PWY |
| ARG+POLYAMINE-SYN_ORNARGDEG-PWY | arginine and polyamine biosynthesis and arginine and ornithine utilization superpathway | ARG+POLYAMINE-SYN, ORNARGDEG-PWY |
| MENAQUINONESYN-PWY | menaquinone biosynthesis | MENAQUINONESYN-PWY |
| IDNCAT-PWY | L-idonate catabolism | IDNCAT-PWY |
| GALACTCAT-PWY | galactonate catabolism | GALACTCAT-PWY |
| SUGARCAT-PWY | lactose, glucose and galactose degradation | SUGARCAT-PWY |
| CYANCAT-PWY | cyanate catabolism | CYANCAT-PWY |
| PYRUVDEHYD-PWY | pyruvate dehydrogenase | PYRUVDEHYD-PWY |
| GLYCOCAT-PWY | glycogen catabolism | GLYCOCAT-PWY |
| PLPSAL-PWY | pyridoxal 5'-phosphate salvage pathway | PLPSAL-PWY |
| BRANCHED-CHAIN-AA+ALA-PWY_ALADEG-PWY _THREOCAT-PWY | leu+val+ala+ile biosynthesis and L-alanine degradation and threonine catabolism | BRANCHED-CHAIN-AA+ALA-PWY, ALADEG-PWY, THREOCAT-PWY |
| GALACT-GLUCUROCAT-PWY | galacturonate and glucuronate catabolism | GALACT-GLUCUROCAT-PWY |
| PPGPPMET-PWY | ppGpp metabolism | PPGPPMET-PWY |
| CARNMET-PWY | carnitine metabolism, CoA-linked | CARNMET-PWY |
| ACETATEUTIL-PWY | acetate utilization | ACETATEUTIL-PWY |
| BETSYN-PWY | betaine biosynthesis | BETSYN-PWY |
| ENTBACSYN-PWY | enterobactin synthesis | ENTBACSYN-PWY |
| COBALSYN-PWY | cobalamin biosynthesis | COBALSYN-PWY |
| HISTDEG-PWY | histidine degradation | HISTDEG-PWY |
| DEOXYRIBONUCMET-PWY | deoxyribonucleotide metabolism | DEOXYRIBONUCMET-PWY |
| HEXITOLDEGSUPER-PWY | hexitol degradation super-pathway | HEXITOLDEGSUPER-PWY |
| KDO-PEP-LIPASYN-PWY_GLCMANNANAUT-PWY | KDO2-lipid A and peptidoglycan biosynthesis and N-acetylneuraminic acid | KDO-PEP-LIPASYN-PWY, GLCMANNANAUT-PWY |
| LCYSDEG-PWY | L-cysteine catabolism | LCYSDEG-PWY |
| PYR-RIBONUCMET-PWY | pyrimidine ribonucleotide/ribonucleoside metabolism | PYR-RIBONUCMET-PWY |
| THISYN-PWY | thiamin biosynthesis | THISYN-PWY |
| ALL-CHORISMATE-PWY_1CMET2-PWY | pathways of chorismate and formylTHF biosynthesis | ALL-CHORISMATE-PWY, 1CMET2-PWY |
| DAPLYSINESYN-PWY | lysine and diaminopimelate biosynthesis | DAPLYSINESYN-PWY |
| SERDEG-PWY | L-serine degradation | SERDEG-PWY |
| PANTOSYN-PWY | pantothenate and coenzyme A biosynthesis | PANTOSYN-PWY |
| OANTIGEN-PWY | O-antigen biosynthesis | OANTIGEN-PWY |
| SER-GLYSYN-PWY | serine and glycine biosynthesis | SER-GLYSYN-PWY |
| PROSYN-PWY | proline biosynthesis | PROSYN-PWY |
| TRESYN-PWY | trehalose biosynthesis | TRESYN-PWY |
| HCAMHPDEG-PWY | 3-phenylpropionate and 3-(3-hydroxyphenyl)propionate degradation | HCAMHPDEG-PWY |
| NONMEVIPP-PWY | isopentenyl diphosphate biosynthesis, mevalonate-independent | NONMEVIPP-PWY |
| POLYISOPRENSYN-PWY | polyisoprenoid biosynthesis | POLYISOPRENSYN-PWY |
| GLYCOGENSYNTH-PWY | glycogen biosynthesis | GLYCOGENSYNTH-PWY |
| ACETOACETATE-DEG-PWY | degradation of short-chain fatty acids | ACETOACETATE-DEG-PWY |
| GLUTAMINDEG-PWY | glutamine degradation I | GLUTAMINDEG-PWY |
| GLYCOLYSIS/TCA/GLYOX-BYPASS_GLYCOLYSIS/E-D _ANARESP1-PWY | glycolysis+TCA+glyoxylate bypass and glycolysis+Entner-Doudoroff and anaerobic respiration and fermentation and gluconeogenesis and glycol metabolism and degradation | GLYCOLYSIS%2FTCA%2FGLYOX-BYPASS, GLYCOLYSIS%2FE-D, ANARESP1-PWY, FERMENTATION-PWY, GLUCONEO-PWY, GLYCOL-GLYOXDEG-PWY |
| SULFATE-CYS-PWY | sulfate assimilation and cysteine biosynthesis | SULFATE-CYS-PWY |
| MET-SAM-PWY_THRESYN-PWY | methionine and methyl-donor-molecule biosynthesis and threonine biosynthesis | MET-SAM-PWY, THRESYN-PWY |
| HEMESYN2-PWY | biosynthesis of proto- and siroheme | HEMESYN2-PWY |
| ANARESPACC-PWY | anaerobic respiration, electron acceptors reaction list | ANARESPACC-PWY |
| COLANSYN-PWY_MANGDPMET-PWY | colanic acid biosynthesis and mannose and GDP-mannose metabolism | COLANSYN-PWY, MANGDPMET-PWY |
| PRPP-PWY_NUCMET2-PWY | his+purine+pyrimidine biosynthesis and nucleotide metabolism | PRPP-PWY, NUCMET2-PWY |
| FAO-PWY | fatty acid oxidation pathway | FAO-PWY |
| DEOXYPYRNUCMET-PWY_RIB-DRIBMET-PWY | deoxypyrimidine nucleotide/side metabolism and ribose and deoxyribose phosphate metabolism | DEOXYPYRNUCMET-PWY, RIB-DRIBMET-PWY |
| Character at begining of line |
Meaning | Character at end of line |
| > | Start of file; followed by pathway ID | N/A |
| \ | Pathway description | N/A |
| { | Start of thread; contains thread number and first reaction frame in thread | } |
| ^ | Preceeding threads: the identifiers for the threads connected 'upstream' to the current one | ^ |
| ( | Next reaction frame in thread: Line contains previous reaction frame identifier followed by next frame identifier | ) |
| $ | Subsequent threads: the identifiers for the threads connected 'downstream' to the current one | $ |
| # | Comment line | N/A |