If an enzyme name is shown in bold, there is experimental evidence for this enzymatic activity.
Locations of Mapped Genes:
Synonyms: ribose catabolism
|Superclasses:||Degradation/Utilization/Assimilation → Carbohydrates Degradation → Sugars Degradation|
D-ribose, which can serve as a total source of carbon and energy for E. coli, enters the cell via a high-affinity ABC transport system and hence in unphosphorylated form. The crystal structure of the periplasmic ribose binding protein of the ribose ABC transporter showed it to bind (and thus presumably to facilitate transport of) β-D-ribopyranose [Mowbray92]. ribose pyranase accelerates the conversion between the pyranose and furanose forms of β-D-ribose. Interconversion of the α- and β-anomers of D-ribofuranose is fast and spontaneous [Ryu04]. ribokinase then converts it to D-ribose 5-phosphate, an intermediate of the pentose phosphate pathway, and hence it flows through the pathways of central metabolism to satisfy the cell's need for precursor metabolites, reducing power, and metabolic energy.
Review: Mayer, C. and W. Boos, Hexose/Pentose and Hexitol/Pentitol Metabolism. EcoSal Module 3.4.1 [ECOSAL]
Ryu04: Ryu KS, Kim C, Kim I, Yoo S, Choi BS, Park C (2004). "NMR application probes a novel and ubiquitous family of enzymes that alter monosaccharide configuration." J Biol Chem 279(24);25544-8. PMID: 15060078
Bell86: Bell AW, Buckel SD, Groarke JM, Hope JN, Kingsley DH, Hermodson MA (1986). "The nucleotide sequences of the rbsD, rbsA, and rbsC genes of Escherichia coli K12." J Biol Chem 261(17);7652-8. PMID: 3011793
Bork93: Bork P, Sander C, Valencia A (1993). "Convergent evolution of similar enzymatic function on different protein folds: the hexokinase, ribokinase, and galactokinase families of sugar kinases." Protein Sci 2(1);31-40. PMID: 8382990
Chuvikovsky06: Chuvikovsky DV, Esipov RS, Skoblov YS, Chupova LA, Muravyova TI, Miroshnikov AI, Lapinjoki S, Mikhailopulo IA (2006). "Ribokinase from E. coli: expression, purification, and substrate specificity." Bioorg Med Chem 14(18);6327-32. PMID: 16784868
DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114
Feng09a: Feng Y, Zhang M, Hu M, Zheng J, Jiao W, Chang Z (2009). "Disassembly intermediates of RbsD protein remain oligomeric despite the loss of an intact secondary structure." Sci China C Life Sci 52(11);997-1002. PMID: 19937196
Hayes02: Hayes CS, Bose B, Sauer RT (2002). "Stop codons preceded by rare arginine codons are efficient determinants of SsrA tagging in Escherichia coli." Proc Natl Acad Sci U S A 99(6);3440-5. PMID: 11891313
Hope86: Hope JN, Bell AW, Hermodson MA, Groarke JM (1986). "Ribokinase from Escherichia coli K12. Nucleotide sequence and overexpression of the rbsK gene and purification of ribokinase." J Biol Chem 261(17);7663-8. PMID: 3011794
Iida84: Iida A, Harayama S, Iino T, Hazelbauer GL (1984). "Molecular cloning and characterization of genes required for ribose transport and utilization in Escherichia coli K-12." J Bacteriol 158(2);674-82. PMID: 6327617
Kim01b: Kim MS, Oh H, Park C, Oh BH (2001). "Crystallization and preliminary X-ray crystallographic analysis of Escherichia coli RbsD, a component of the ribose-transport system with unknown biochemical function." Acta Crystallogr D Biol Crystallogr 57(Pt 5);728-30. PMID: 11320319
Kim03: Kim MS, Shin J, Lee W, Lee HS, Oh BH (2003). "Crystal structures of RbsD leading to the identification of cytoplasmic sugar-binding proteins with a novel folding architecture." J Biol Chem 278(30);28173-80. PMID: 12738765
Kim04b: Kim I, Kim E, Yoo S, Shin D, Min B, Song J, Park C (2004). "Ribose utilization with an excess of mutarotase causes cell death due to accumulation of methylglyoxal." J Bacteriol 186(21);7229-35. PMID: 15489434
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