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Table 17 Conflicts between EcoCyc–18.0–GEM growth predictions and experimental sulfur source utilization data for aerobic growth on Biolog PM plates at 37°C

From: A genome-scale metabolic flux model of Escherichia coli K–12 derived from the EcoCyc database

Sulfur source HT Sim Comments
L-methionine + Methionine and related compounds enable respiration in Biolog PM assays when supplied as a sulfur
D-methionine + source. A route of catabolism is not present in EcoCyc, and methionine is not considered to support sulfur
N-acetyl-DL-methionine + requirements in E. coli[179]. This result suggests further investigation.
Gly-Met +  
L-cystathionine +  
L-methionine S-oxide +  
L-cysteine + L/D-cysteine lack clear pathways of uptake in EcoCyc–18.0–GEM. This problem will be a subject of future
D-cysteine + EcoCyc development.
Thiophosphate + PhoA activity on thiophosphate will be added in future versions of EcoCyc.
Djenkolate + The route of uptake is unknown. Catabolism may proceed via MetC [180].
Lanthionine +  
3-sulfinoalanine + The route of uptake is unknown. SufS and CsdA can convert 3-sulfinoalanine to alanine and sulfite.
Cysteamine + Routes of uptake and catabolism for cysteamine, dithiophosphate, hypotaurine, tetrathionate, and
Dithiophosphate + thiourea are unknown.
Hypotaurine +  
Tetrathionate +  
Thiourea +  
  1. See Table 14 caption for description of column headings.