Home Repository Download Help About Statistics Taxonomy Blastx
Links
PULDB
CAZy
dbCAN2
dbCAN-seq
run_dbcan
CAZypedia
PlantCAZyme
Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0063

PubMed

31420336, Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.

Characterization method

bicinchoninic acid (BCA) reducing-sugar assay,enzymatic product analysis,affinity gel electrophoresis,isothermal titration calorimetry

Genomic accession number

DS264579.1

Nucelotide position range

32561-60327

Substrate

xyloglucan

Loci

BACOVA_02644-BACOVA_02659

Species

Bacteroides ovatus/28116

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BACOVA_02644 EDO11435.1 0 - 2244 (-) DS264579.1:32561-34805 -
- BACOVA_02645 EDO11436.1 2251 - 4807 (-) DS264579.1:34812-37368 -
- BACOVA_02646 EDO11437.1 4826 - 7691 (-) DS264579.1:37387-40252 3.2.1.-
- BACOVA_02648 EDO11439.1 7833 - 11874 (-) DS264579.1:40394-44435 -
- BACOVA_02647 EDO11438.1 11813 - 11954 (+) DS264579.1:44374-44515 -
- BACOVA_02649 EDO11440.1 11938 - 13702 (-) DS264579.1:44499-46263 -
- BACOVA_02650 EDO11441.1 13768 - 15238 (-) DS264579.1:46329-47799 -
- BACOVA_02651 EDO11442.1 15251 - 16892 (-) DS264579.1:47812-49453 -
- BACOVA_02652 EDO11443.1 16903 - 20077 (-) DS264579.1:49464-52638 -
- BACOVA_02653 EDO11444.1 20102 - 21611 (-) DS264579.1:52663-54172 -
- BACOVA_02654 EDO11445.1 21783 - 23364 (-) DS264579.1:54344-55925 -
- BACOVA_02655 EDO11446.1 23381 - 23486 (-) DS264579.1:55942-56047 -
- BACOVA_02656 EDO11447.1 23532 - 24993 (-) DS264579.1:56093-57554 -
- BACOVA_02657 EDO11448.1 25000 - 25222 (+) DS264579.1:57561-57783 -
- BACOVA_02658 EDO11449.1 25066 - 25195 (-) DS264579.1:57627-57756 -
- BACOVA_02659 EDO11450.1 25406 - 27767 (+) DS264579.1:57967-60328 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 2244 (-) CAZyme: GH3 Yes
- 2252 - 4807 (-) CAZyme: GH2 Yes
- 4827 - 7691 (-) CAZyme: GH31 Yes
- 7834 - 11874 (-) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 Yes
- 11814 - 11954 (+) other Yes
- 11939 - 13702 (-) CAZyme: GH9 Yes
- 13769 - 15238 (-) other Yes
- 15252 - 16892 (-) other Yes
- 16904 - 20077 (-) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 20103 - 21611 (-) CAZyme: GH5_4 Yes
- 21784 - 23364 (-) CAZyme: GH43|GH43_12 Yes
- 23382 - 23486 (-) other Yes
- 23533 - 24993 (-) CAZyme: GH43_12 Yes
- 25001 - 25222 (+) other Yes
- 25067 - 25195 (-) other Yes
- 25407 - 27767 (+) CAZyme: GH3 Yes

PUL ID

PUL0063

PubMed

31420336, Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.

Title

Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity.

Author

Dejean G, Tauzin AS, Bennett SW, Creagh AL, Brumer H

Abstract

Genome sequencing has revealed substantial variation in the predicted abilities of individual species within animal gut microbiota to metabolize the complex carbohydrates comprising dietary fiber. At the same time, a currently limited body of functional studies precludes a richer understanding of how dietary glycan structures affect the gut microbiota composition and community dynamics. Here, using biochemical and biophysical techniques, we identified and characterized differences among recombinant proteins from syntenic xyloglucan utilization loci (XyGUL) of three Bacteroides and one Dysgonomonas species from the human gut, which drive substrate specificity and access to distinct polysaccharide side chains. Enzymology of four syntenic glycoside hydrolase family 5 subfamily 4 (GH5_4) endo-xyloglucanases revealed surprising differences in xyloglucan (XyG) backbone cleavage specificity, including the ability of some homologs to hydrolyze congested branched positions. Further, differences in the complement of GH43 alpha-l-arabinofuranosidases and GH95 alpha-l-fucosidases among syntenic XyGUL confer distinct abilities to fully saccharify plant species-specific arabinogalactoxyloglucan and/or fucogalactoxyloglucan. Finally, characterization of highly sequence-divergent cell surface glycan-binding proteins (SGBPs) across syntenic XyGUL revealed a novel group of XyG oligosaccharide-specific SGBPs encoded within select BacteroidesIMPORTANCE The catabolism of complex carbohydrates that otherwise escape the endogenous digestive enzymes of humans and other animals drives the composition and function of the gut microbiota. Thus, detailed molecular characterization of dietary glycan utilization systems is essential both to understand the ecology of these complex communities and to manipulate their compositions, e.g., to benefit human health. Our research reveals new insight into how ubiquitous members of the human gut microbiota have evolved a set of microheterogeneous gene clusters to efficiently respond to the structural variations of plant xyloglucans. The data here will enable refined functional prediction of xyloglucan utilization among diverse environmental taxa in animal guts and beyond.