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Prior-Knowledge Description Expectation Prediction Conclusion Leaf Statistics
Component_51417 L-rhamnose isomerase (RhaA/RhaI) False - {{f}} True - {{t}} Unexpected presence
Evidence_68086 PF06379 HMM False - {{f}} None - {{∅}} Absent
Component_51418 rhamnulokinase (RhaB/RhuK) False - {{f}} True - {{t}} Unexpected presence
Evidence_68063 PF06134 HMM False - {{f}} True - {{t}} Unexpected presence
Evidence_68082 TIGR02627 HMM False - {{f}} True - {{t}} Unexpected presence
Evidence_68096 TIGR02637 HMM False - {{f}} None - {{∅}} Absent
Component_51426 rhamnose epimerase None - {{∅}} True - {{t}} Unconfirmed presence
Evidence_68081 TIGR02625 HMM None - {{∅}} True - {{t}} Unconfirmed presence
Evidence_68087 TIGR00776 HMM False - {{f}} True - {{t}} Unexpected presence
Component_51420 rhamnulose-1-P aldolase (RhaD) False - {{f}} True - {{t}} Unexpected presence
Evidence_68065 TIGR02624 HMM False - {{f}} None - {{∅}} Absent
GenProp0457 rhamnose catabolism~L-rhamnose, (aka 6-deoxy-L-mannose) is a common sugar synthesized and utilized in oligosaccharides and glcyolipids by many bacteria [2]. The monosaccharide is available in various environments and thus regulatory, transport and enzymatic systems have also evolved for its breakdown and use as a carbon source. The system modeled here includes specific transporters, ketose-aldose isomerases, kinases, and aldolases which result in the production of lactaldehyde and glycerone-phosphate. As these genes are generally organized into operons, assignments can be made for regulatory components as well as transport and enzymatic components which, by homology alone, cannot be assigned a specific substrate. Certain of the enzymes in this system are similar enough to cognate enzymes in the fucose catabolism system (GenProp0458) as to have caused gene naming errors in the past (i.e. fuculokinase/rhamnokinase). The system in certain rhizobial species [1] has been reported to vary from the canonical pathway in that the sugar may be phosphorylated prior to isomerization (i.e. the rhamnulokinase may in fact be a rhamnokinase and the rhamnose isomerase may be a rhamnose-1-phosphate isomerase), although this has not yet been independantly verified. In addition to the characterized rhamnose:proton symporter [3], rhamnose catabolism operons contain transporters from the ABC, and major facilitator families. Regulators are generally members of the DeoR and AraC [4] families. The product of both rhamnose and fucose catabolism is lactaldehyde, and subsequently alcohol and aldehyde dehydrogenases are often present in those operons to convert it to either 1,2-propane diol or lactate depending on oxidation conditions [5]. Rhamnose operons also often contain an epimerase (mutarotase) enzyme which has been proposed to be essential unly under limiting L-rhamnose conditions [6]. Partial rhamnose catabolism operons have been detected in Thermotoga species which appear to handle the import and cleavage of rhamnose-containing oligosaccharides. False - {{f}} True - {{t}} Unexpected presence
Evidence_68094 TIGR02635 HMM False - {{f}} None - {{∅}} Absent
Evidence_68090 TIGR02632 HMM False - {{f}} True - {{t}} Unexpected presence
Evidence_68064 TIGR01748 HMM False - {{f}} True - {{t}} Unexpected presence
Evidence_68088 TIGR02629 HMM False - {{f}} None - {{∅}} Absent
Component_51421 rhamnose transporters (RhaSTPQ) False - {{f}} True - {{t}} Unexpected presence