SEED Subsystem: D-Galacturonate and D-Glucuronate Utilization in Klebsiella michiganensis M5al

Experiments:

Role Gene Name rhizosphere EcoFAB sample 3; outgrowth in LB  
2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase (EC 1.1.1.127) No genes
2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) BWI76_RS26750 +0.9
2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) No genes
2-deoxy-D-gluconate 3-dehydrogenase (EC 1.1.1.125) BWI76_RS03430 +0.0
  BWI76_RS11775 +0.1
  BWI76_RS23430 +0.2
2-keto-3-deoxygluconate permease (KDG permease) No genes
4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase (EC 5.3.1.17) No genes
5-dehydro-4-deoxyglucarate dehydratase (EC 4.2.1.41) No genes
Alcohol dehydrogenase, zinc-containing No genes
Alpha-1,4-digalacturonate ABC transporter, permease protein 1 No genes
Alpha-1,4-digalacturonate ABC transporter, permease protein 2 No genes
Alpha-1,4-digalacturonate ABC transporter, substrate-binding protein No genes
Alpha-glucosidase (EC 3.2.1.20) BWI76_RS08195 -0.7
  BWI76_RS09045 +0.2
Alpha-glucuronidase (EC 3.2.1.139) No genes
Altronate hydrolase (EC 4.2.1.7) No genes
Altronate oxidoreductase (EC 1.1.1.58) BWI76_RS03945 +0.2
  BWI76_RS15180 +0.7
Beta-glucuronidase (EC 3.2.1.31) No genes
Carbohydrate-binding, CenC domain protein No genes
D-galactarate dehydratase (EC 4.2.1.42) BWI76_RS24840 +0.2
D-mannonate oxidoreductase (EC 1.1.1.57) BWI76_RS05645 -0.7
  BWI76_RS15490 +0.2
  BWI76_RS19755 +0.0
Endo-1,4-beta-xylanase A precursor (EC 3.2.1.8) BWI76_RS00125 -0.2
Exopolygalacturonate lyase (EC 4.2.2.9) BWI76_RS00175 +0.2
  BWI76_RS10600 +0.2
Fructuronate transporter GntP No genes
Galacturan 1,4-alpha-galacturonidase (EC 3.2.1.67) No genes
Glucuronide permease No genes
Glucuronide transport facilitator UidC No genes
Glucuronide transporter UidB No genes
Hexuronate transporter BWI76_RS09050 -0.1
  BWI76_RS24735 +0.1
Hexuronate utilization operon transcriptional repressor ExuR BWI76_RS24740 -5.9
Intracellular alpha-amylase (EC 3.2.1.1) No genes
Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) No genes
Mannonate dehydratase (EC 4.2.1.8) BWI76_RS05650 +0.0
  BWI76_RS23640 +0.0
Novel D-mannonate dehydrogenase (EC 1.1.1.57) No genes
Novel D-mannonate-D-gluconate epimerase No genes
Novel D-tagaturonate epimerase No genes
Oligogalacturonate lyase (EC 4.2.2.6) BWI76_RS23400 -0.3
  BWI76_RS23435 +0.2
Oligogalacturonate-specific porin protein KdgM BWI76_RS10605 -1.4
Pectate lyase precursor (EC 4.2.2.2) No genes
Pectin degradation protein KdgF BWI76_RS23375 +0.1
Pectin lyase (EC 4.2.2.10) No genes
Pectinesterase (EC 3.1.1.11) BWI76_RS08715 -0.1
Polygalacturonase (EC 3.2.1.15) BWI76_RS06020 -0.3
  BWI76_RS20975 -0.2
Predicted 2-keto-3-deoxygluconate-responsive regulator of glucuronate utilization, IclR family No genes
Predicted D-glucuronide-specific TRAP transporter, large transmembrane component No genes
Predicted D-glucuronide-specific TRAP transporter, small transmembrane component No genes
Predicted D-glucuronide-specific TRAP transporter, substrate-binding component No genes
Putative methyl oligogalcturonate esterase No genes
Regulator of pectin and galacturonate utilization, GntR family No genes
Rhamnogalacturonides degradation protein RhiN BWI76_RS18215 +0.1
  BWI76_RS20985 +0.6
Transcriptional regulator KdgR, KDG operon repressor BWI76_RS17960 N.D.
Transcriptional repressor UidR No genes
Uronate dehydrogenase (EC 1.1.1.203) No genes
Uronate isomerase (EC 5.3.1.12) BWI76_RS23645 -0.7
  BWI76_RS24730 -0.2
Uronate isomerase, family BH0493 (EC 5.3.1.12) No genes
Uxu operon transcriptional regulator BWI76_RS05640 +0.5
  BWI76_RS23340 -0.9
Xylan oligosaccharide ABC transporter, ATP-binding protein 1 No genes
Xylan oligosaccharide ABC transporter, substrate-binding component No genes
Xylan oligosaccharide ABC transporter, ATP-binding protein 2 No genes
Xylan oligosaccharide ABC transporter, permease component 1 No genes
Xylan oligosaccharide ABC transporter, permease component 2 No genes

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