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Table 4 B. longum and MetaCyc reactions whose directionality was manually curated during B. longum model development. Reaction identifiers can be mapped to actual reactions at the MetaCyc.org website

From: How accurate is automated gap filling of metabolic models?

BioCyc Reaction ID Metabolic Goal Curated Direction
METHENYLTHFCYCLOHYDRO-RXN Glycine and one-carbon metabolism REVERSIBLE
HYPOXANPRIBOSYLTRAN-RXN Histidine synthesis PHYSIOL-R2L (PPi produced)
IMP-DEHYDROG-RXN Xanthine synthesis REVERSIBLE
RIBOKIN-RXN Ribose synthesis PHYSIOL-L2R (kinase activity)
RXN-14223 Ribose degradation PHYSIOL-L2R
TYROSINE-AMINOTRANSFERASE-RXN Tyrosine synthesis REVERSIBLE (aminotransferase activity)
GLYC3PDEHYDROGBIOSYN-RXN Phospholipid synthesis PHYSIOL-R2L (avoid spontaneous
   NADH → NADPH transhydrogenation)
1.1.1.8-RXN Phospholipid synthesis PHYSIOL-R2L (avoid spontaneous
   NADH → NADPH transhydrogenation)
MALONYL-COA-ACP-TRANSACYL-RXN Phospholipid synthesis PHYSIOL-L2R (biosynthetic direction)
3-OXOACYL-ACP-REDUCT-RXN Phospholipid synthesis PHYSIOL-R2L (avoid NADPH-generating cycle)
RXN0-6705 Phospholipid synthesis PHYSIOL-R2L (avoid NADPH-generating cycle)
PHOSPHAGLYPSYN-RXN Phospholipid synthesis PHYSIOL-L2R (avoid NADPH-generating cycle)
H2PTERIDINEPYROPHOSPHOKIN-RXN THF synthesis PHYSIOL-L2R
RXN-9772 NAD synthesis PHYSIOL-L2R
RIBULP3EPIM-RXN Pentose phosphate pathway REVERSIBLE
RIB5PISOM-RXN Pentose phosphate pathway REVERSIBLE
1TRANSKETO-RXN Pentose phosphate pathway REVERSIBLE
2TRANSKETO-RXN Pentose phosphate pathway REVERSIBLE
TRANSALDOL-RXN Pentose phosphate pathway REVERSIBLE
PHOSACETYLTRANS-RXN Central carbon metabolism REVERSIBLE
RXN-12195 Phosphorylation debugging PHYSIOL-L2R
RXN-12196 Phosphorylation debugging PHYSIOL-L2R
XANPRIBOSYLTRAN-RXN Phosphorylation debugging PHYSIOL-R2L
DCTP-PYROPHOSPHATASE-RXN Phosphorylation debugging PHYSIOL-L2R
RXN-7913 Phosphorylation debugging PHYSIOL-L2R
ATPASE-RXN Phosphorylation debugging PHYSIOL-L2R
RXN0-5468 Phosphorylation debugging PHYSIOL-L2R
ALDHDEHYDROG-RXN Phosphorylation debugging PHYSIOL-L2R