Browse dbCAN-PUL Entries
| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0117 | expression of recombinant proteins, RNA-seq, differential gene expression, enzyme specificity assay, enzyme activity assay | host glycan | Bacteroides thetaiotaomicron | 31160824 Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Discovery of beta-1,4-D-mannosyl-N-acetyl-D-glucosamine phosphorylase involved in the metabolism of N-glycans. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. J Biol Chem. 2013 Sep 20;288(38):27366-27374. doi: 10.1074/jbc.M113.469080. Epub 2013 Aug 13. |
2019 Sep,2013 Sep 20 | degradation | 22 | 7 | GH130_2, GH163, GH18, GH20, GH92 |
| PUL0120 | expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | 31160824 Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. |
2019 Sep | degradation | 6 | 1 | GH18 |
| PUL0144 | enzyme activity assay, Western Blot | chitin | Thermococcus kodakarensis | 16199574 Characterization of a novel glucosamine-6-phosphate deaminase from a hyperthermophilic archaeon. J Bacteriol. 2005 Oct;187(20):7038-44. doi: 10.1128/JB.187.20.7038-7044.2005. |
2005 Oct | degradation | 12 | 4 | CE14, GH1, GH18, GH35 |
| PUL0171 | qRT-PCR, RNA-seq | host glycan | Bacteroides fragilis | 27353652 cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides. J Bacteriol. 2016 Aug 25;198(18):2410-8. doi: 10.1128/JB.00381-16. Print 2016 Sep 15. |
2016 Sep 15 | degradation | 7 | 1 | GH18 |
| PUL0208 | growth assay, clone and expression, enzyme activity assay | chitin | Pseudoalteromonas luteoviolacea | 31213521 Marine Chitinolytic Pseudoalteromonas Represents an Untapped Reservoir of Bioactive Potential. Multiple genes involved in chitin degradation from the marine bacterium Pseudoalteromonas sp. strain S91. mSystems. 2019 Jun 18;4(4):e00060-19. doi: 10.1128/mSystems.00060-19. Microbiology (Reading). 1999 Apr;145 ( Pt 4):925-934. doi: 10.1099/13500872-145-4-925. |
2019 Jun 18,1999 Apr | degradation | 3 | 3 | AA10, CBM5, CBM5, GH18, GH18, CBM5, CBM5 |
| PUL0211 | enzyme activity assay, gene deletion mutant and growth assay, thin-layer chromatography | host glycan | Xanthomonas campestris pv. campestris | 25586188 The N-Glycan cluster from Xanthomonas campestris pv. campestris: a toolbox for sequential plant N-glycan processing. The plant pathogen Xanthomonas campestris pv. campestris exploits N-acetylglucosamine during infection. J Biol Chem. 2015 Mar 6;290(10):6022-36. doi: 10.1074/jbc.M114.624593. Epub 2015 Jan 13. mBio. 2014 Sep 9;5(5):e01527-14. doi: 10.1128/mBio.01527-14. |
2015 Mar 6,2014 Sep 9 | degradation | 9 | 8 | GH125, GH18, GH2, GH20, GH29, GH3, GH35, GH92 |
| PUL0269 | RT-PCR | chitin | Haloferax mediterranei | 23674154 Characterization of genes for chitin catabolism in Haloferax mediterranei. Appl Microbiol Biotechnol. 2014 Feb;98(3):1185-94. doi: 10.1007/s00253-013-4969-8. Epub 2013 May 15. |
2014 Feb | degradation | 16 | 6 | CBM5, CBM5, GH18, CE14, GH3 |
| PUL0307 | enzyme activity assay | chitin | Serratia marcescens subsp. marcescens | 29229757 Structure and activity of ChiX: a peptidoglycan hydrolase required for chitinase secretion by Serratia marcescens. Comparative studies of chitinases A and B from Serratia marcescens. Biochem J. 2018 Jan 23;475(2):415-428. doi: 10.1042/BCJ20170633. Microbiology (Reading). 1996 Jul;142 ( Pt 7):1581-9. doi: 10.1099/13500872-142-7-1581. |
2018 Jan 23,1996 Jul | degradation | 6 | 2 | AA10, GH18 |
| PUL0344 | gene deletion mutant and growth assay, protein structure characterization | chitin | Flavobacterium johnsoniae | 27933102 A polysaccharide utilization locus from Flavobacterium johnsoniae enables conversion of recalcitrant chitin. Structural insights of the enzymes from the chitin utilization locus of Flavobacterium johnsoniae. Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Biotechnol Biofuels. 2016 Nov 28;9:260. doi: 10.1186/s13068-016-0674-z. eCollection 2016. Sci Rep. 2020 Aug 13;10(1):13775. doi: 10.1038/s41598-020-70749-w. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2016,2020 Aug 13,2009 Nov | degradation | 11 | 3 | GH18, GH18, GH18, GH20 |
| PUL0356 | microarray | human milk oligosaccharide | Bacteroides thetaiotaomicron | 16968696 Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. |
2006 Nov 24 | degradation | 9 | 1 | GH18 |
| PUL0376 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 9 | 2 | GH16_3, GH18 |
| PUL0380 | microarray, qPCR, microarray, enzyme activity assay, strcutural analysis, clone and expression | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. Structural basis of mammalian high-mannose N-glycan processing by human gut Bacteroides. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. Nat Commun. 2020 Feb 14;11(1):899. doi: 10.1038/s41467-020-14754-7. |
2008 Nov 13,2006 Nov 24,2020 Feb 14 | degradation | 12 | 4 | GH18, GH92 |
| PUL0397 | gene deletion mutant and growth assay | glycosaminoglycan | Capnocytophaga canimorsus | 21762219 The genome and surface proteome of Capnocytophaga canimorsus reveal a key role of glycan foraging systems in host glycoproteins deglycosylation. Mol Microbiol. 2011 Aug;81(4):1050-60. doi: 10.1111/j.1365-2958.2011.07750.x. Epub 2011 Jul 18. |
2011 Aug | degradation | 5 | 1 | GH18 |
| PUL0406 | high-performance anion-exchange chromatography | beta-glucan | Coprothermobacter proteolyticus | 30315317 From proteins to polysaccharides: lifestyle and genetic evolution of Coprothermobacter proteolyticus. ISME J. 2019 Mar;13(3):603-617. doi: 10.1038/s41396-018-0290-y. Epub 2018 Oct 12. |
2019 Mar | degradation | 21 | 3 | GH16_3, GH18, GH3 |
| PUL0422 | microarray | host glycan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 4 | 1 | GH18 |
| PUL0424 | microarray | host glycan | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 18 | 5 | GH130_2, GH163, GH18, GH92 |
| PUL0426 | microarray | mucin | Bacteroides ovatus | 22205877 Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2011 Dec | degradation | 13 | 4 | GH18, GH92 |
| PUL0442 | mass spectrometry, high-performance anion-exchange chromatography, SDS-PAGE, recombinant protein expression, enzyme activity assay, substrate binding assay | glucomannan/chitin | Chitinophaga pinensis DSM 2588 | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. A polysaccharide utilization locus from Chitinophaga pinensis simultaneously targets chitin and beta-glucans found in fungal cell walls. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. mSphere. 2023 Aug 24;8(4):e0024423. doi: 10.1128/msphere.00244-23. Epub 2023 Jul 26. |
2017 Mar 6,2023 Aug 24 | degradation | 9 | 3 | GH16_3, CBM6, GH18, CBM6, GH18, GH18, CBM5 |
| PUL0465 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 8 | 2 | GH18 |
| PUL0467 | microarray, qPCR, expression of recombinant proteins, RNA-seq, differential gene expression | host glycan | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3. |
2008 Nov 13,2019 Sep | degradation | 14 | 4 | GH18, GH2, GH20, GH29, CBM32 |
| PUL0470 | microarray, qPCR | mucin | Bacteroides thetaiotaomicron | 18996345 Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. |
2008 Nov 13 | degradation | 7 | 1 | GH18 |
| PUL0475 | clone and expression, gene deletion mutant and growth assay | beta-glucan | Streptomyces reticuli | 10347054 Characterization of the binding protein-dependent cellobiose and cellotriose transport system of the cellulose degrader Streptomyces reticuli. Appl Environ Microbiol. 1999 Jun;65(6):2636-43. doi: 10.1128/AEM.65.6.2636-2643.1999. |
1999 Jun | degradation | 7 | 2 | CBM2, GH18, GH1 |
| PUL0497 | clone and expression, enzyme activity assay | chitin | Pseudoalteromonas piscicida | 11772635 Identification and characterization of the gene cluster involved in chitin degradation in a marine bacterium, Alteromonas sp. strain O-7. Appl Environ Microbiol. 2002 Jan;68(1):263-70. doi: 10.1128/AEM.68.1.263-270.2002. |
2002 Jan | degradation | 3 | 3 | AA10, CBM5, GH18, GH18, CBM5 |
| PUL0556 | gene deletion mutant and growth assay, qRT-PCR, microarray, enzyme activity assay | host glycan | Bacteroides fragilis | 25139987 Efficient utilization of complex N-linked glycans is a selective advantage for Bacteroides fragilis in extraintestinal infections. Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12901-6. doi: 10.1073/pnas.1407344111. Epub 2014 Aug 19. |
2014 Sep 2 | degradation | 8 | 2 | GH18, GH97 |
| PUL0665 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 8 | 2 | GH18, GH30_4 |
| PUL0786 | RNA-seq, reducing-sugar assay, growth assay, high performance gel permeation chromatography, gas chromatography, RNA-seq, differential gene expression | pectic polysaccharide | Bacteroides ovatus strain ATCC 8483 | 38890895 The Utilization by Bacteroides spp. of a Purified Polysaccharide from Fuzhuan Brick Tea. In vitro fermentation of a purified fraction of polysaccharides from the root of Brassica rapa L. by human gut microbiota and its interaction with Bacteroides ovatus. Foods. 2024 May 26;13(11):1666. doi: 10.3390/foods13111666. Food Chem. 2025 May 1;473:143109. doi: 10.1016/j.foodchem.2025.143109. Epub 2025 Jan 27. |
2024 May 26,2025 May 1 | degradation | 26 | 14 | CBM67, GH78, CBM67, GH78, GH33, CE19, GH105, GH130_2, GH140, GH143, GH142, GH163, GH18, GH28, GH43_18, GH92, GH95, PL1_2 |
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