Skip to main content

Table 2 Predicted essential genes and potential drug targets.

From: Identifying essential genes in bacterial metabolic networks with machine learning methods

ORF Gene Symbol EC Enzyme Evidence
a) Intersection of our predictions with the experimental screen
STM0123 murE UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase **
STM0128 murG N-acetylglucosaminyl transferase *
STM0129 murC UDP-N-acetylmuramate-L-alanine ligase **
STM0154 lpdA Dihydrolipoamide dehydrogenase  
STM0218 pyrH Uridylate kinase *
STM0221 uppS Undecaprenyl pyrophosphate synthase **
STM0222 cdsA CDP-diglyceride synthase  
STM0228 lpxA UDP-N-acetylglucosamine acyltransferase  
STM0232 accA Acetyl-CoA carboxylase **
STM0489 hemH Ferrochelatase *
STM0535 lpxH   UDP-2,3-diacylglucosamine hydrolase  
STM0542 folD, Bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase  
STM0988 kdsB CTP:CMP-KDO cytidylyltransferase *
STM1194 fabD Acyl carrier protein S-malonyltransferase *
STM1195 fabG 3-ketoacyl-(acyl-carrier-protein) reductase **
STM1200 tmk Thymidylate kinase  
STM1700 fabI Enoyl-(acyl carrier protein) reductase  
STM2483 dapE Succinyl-diaminopimelate desuccinylase  
STM2652 pssA Phosphatidylserine synthase *
STM3090 metK   
STM3415 rpoA DNA-directed RNA polymerase subunit alpha  
STM3724 kdtA   3-deoxy-D-manno-octulosonic-acid transferase *
STM3730 dfp Pantothenate kinase **
STM3912 rep 3.6.1.- ATP-dependent DNA helicase Rep *
STM3978 yigC   3-octaprenyl-4-hydroxybenzoate decarboxylase  
STM4153 rpoB DNA-directed RNA polymerase subunit beta *
STM4154 rpoC DNA-directed RNA polymerase subunit beta'  
b) Predictions for the non-mevalonate pathway
STM0049 ispH, lytB 4-hydroxy-3-methylbut-2-enyl diphosphate reductase *
STM0220 dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase *
STM0422 dxs 1-deoxy-D-xylulose-5-phosphate synthase **
STM0423 ispA geranyltranstransferase *
STM1779 ispE, ipk 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase **
STM2523 ispG, gcpE 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase *
STM2929 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase *
STM2930 ispD 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase *
  1. ** clear evidence to be a drug target
  2. * reasonable evidence to serve as a good drug target