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

PUL0648

PubMed

33667545, J Biol Chem. 2021 Jan-Jun;296:100500. doi: 10.1016/j.jbc.2021.100500. Epub 2021 Mar 2.

Characterization method

high performance anion exchange chromatography,substrate binding assay,thin layer chromatography,NMR,mass spectrometry,crystallization

Genomic accession number

NZ_GL892007.1

Nucelotide position range

234463-309097

Substrate

glucuronoarabinoxylan

Loci

HMPREF9456_RS11100-HMPREF9456_RS11280

Species

Dysgonomonas mossii DSM 22836/163665

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- HMPREF9456_RS11100 WP_026177106.1 0 - 2208 (-) NZ_GL892007.1:234463-236671 -
- HMPREF9456_RS11105 WP_006843625.1 2238 - 3279 (-) NZ_GL892007.1:236701-237742 -
- HMPREF9456_RS11110 WP_006843626.1 3314 - 5120 (-) NZ_GL892007.1:237777-239583 -
- HMPREF9456_RS11115 WP_006843627.1 5134 - 7972 (-) NZ_GL892007.1:239597-242435 -
- HMPREF9456_RS11120 WP_006843628.1 8015 - 9959 (-) NZ_GL892007.1:242478-244422 -
- HMPREF9456_RS11125 WP_006843629.1 9970 - 13114 (-) NZ_GL892007.1:244433-247577 -
- HMPREF9456_RS11130 WP_006843630.1 13668 - 15393 (-) NZ_GL892007.1:248131-249856 -
- HMPREF9456_RS11135 WP_006843631.1 15676 - 16648 (-) NZ_GL892007.1:250139-251111 -
- HMPREF9456_RS11140 WP_018075007.1 16655 - 17786 (-) NZ_GL892007.1:251118-252249 -
- HMPREF9456_RS11145 WP_006843634.1 18577 - 22546 (+) NZ_GL892007.1:253040-257009 2.7.13.3
- HMPREF9456_RS11150 WP_006843635.1 22793 - 24821 (+) NZ_GL892007.1:257256-259284 2.2.1.-
- HMPREF9456_RS11155 WP_006843636.1 24932 - 27296 (+) NZ_GL892007.1:259395-261759 -
- HMPREF9456_RS11160 WP_006843637.1 27392 - 28094 (-) NZ_GL892007.1:261855-262557 -
- HMPREF9456_RS11165 WP_006843638.1 28396 - 29548 (-) NZ_GL892007.1:262859-264011 -
- HMPREF9456_RS11170 WP_006843639.1 29568 - 30852 (-) NZ_GL892007.1:264031-265315 -
- HMPREF9456_RS11175 WP_006843640.1 30865 - 31714 (-) NZ_GL892007.1:265328-266177 -
- HMPREF9456_RS11180 WP_006843641.1 31772 - 33128 (-) NZ_GL892007.1:266235-267591 -
- HMPREF9456_RS11185 WP_006843642.1 33148 - 34483 (-) NZ_GL892007.1:267611-268946 -
- HMPREF9456_RS11190 WP_006843643.1 34491 - 36432 (-) NZ_GL892007.1:268954-270895 -
- HMPREF9456_RS11195 WP_006843644.1 36464 - 38912 (-) NZ_GL892007.1:270927-273375 -
- HMPREF9456_RS11200 WP_026177140.1 39047 - 42923 (-) NZ_GL892007.1:273510-277386 2.7.13.3
- HMPREF9456_RS11205 WP_018075106.1 43307 - 43895 (+) NZ_GL892007.1:277770-278358 -
- HMPREF9456_RS11210 WP_006843647.1 44040 - 46473 (-) NZ_GL892007.1:278503-280936 -
- HMPREF9456_RS11215 WP_006843648.1 46512 - 47469 (-) NZ_GL892007.1:280975-281932 -
- HMPREF9456_RS11220 WP_006843649.1 47594 - 49565 (-) NZ_GL892007.1:282057-284028 -
- HMPREF9456_RS11225 WP_006843651.1 49667 - 51215 (-) NZ_GL892007.1:284130-285678 -
- HMPREF9456_RS11230 WP_006843652.1 52025 - 54545 (+) NZ_GL892007.1:286488-289008 -
- HMPREF9456_RS11235 WP_006843653.1 54556 - 56488 (+) NZ_GL892007.1:289019-290951 -
- HMPREF9456_RS11240 WP_006843654.1 56500 - 57913 (+) NZ_GL892007.1:290963-292376 -
- HMPREF9456_RS11245 WP_006843655.1 57938 - 59090 (+) NZ_GL892007.1:292401-293553 -
- HMPREF9456_RS11250 WP_006843656.1 59111 - 60086 (+) NZ_GL892007.1:293574-294549 -
- HMPREF9456_RS11255 WP_006843657.1 60189 - 62220 (+) NZ_GL892007.1:294652-296683 -
uxuA HMPREF9456_RS11260 WP_006843658.1 62227 - 63400 (+) NZ_GL892007.1:296690-297863 4.2.1.8
- HMPREF9456_RS11265 WP_006843659.1 63396 - 64236 (+) NZ_GL892007.1:297859-298699 -
- HMPREF9456_RS11270 WP_006843660.1 64558 - 68566 (-) NZ_GL892007.1:299021-303029 -
- HMPREF9456_RS11275 WP_006843661.1 69348 - 72540 (+) NZ_GL892007.1:303811-307003 -
- HMPREF9456_RS11280 WP_006843662.1 72559 - 74635 (+) NZ_GL892007.1:307022-309098 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 2208 (-) CAZyme: CBM4|3.2.1.8| GH10|GH10 Yes
- 2239 - 3279 (-) other Yes
- 3315 - 5120 (-) other Yes
- 5135 - 7972 (-) other Yes
- 8016 - 9959 (-) other Yes
- 9971 - 13114 (-) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 13669 - 15393 (-) CAZyme: GH43_12| GH43_12|CBM91 Yes
- 15677 - 16648 (-) CAZyme: GH43_1|GH43_1 Yes
- 16656 - 17786 (-) CAZyme: GH10|GH10 Yes
- 18578 - 22546 (+) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0035607,DBD-SUPERFAMILY|0035607 Yes
- 22794 - 24821 (+) other Yes
- 24933 - 27296 (+) CAZyme: GH146| GH146 Yes
- 27393 - 28094 (-) STP: STP|NUDIX Yes
- 28397 - 29548 (-) CAZyme: CBM48|CE1|CE0 Yes
- 29569 - 30852 (-) CAZyme: GH8|GH8 Yes
- 30866 - 31714 (-) CAZyme: CE6|CE6 Yes
- 31773 - 33128 (-) CAZyme: CBM6| GH43_29| CBM6|GH43_29 Yes
- 33149 - 34483 (-) CAZyme: CBM6| GH43_29| CBM6|GH43_29 Yes
- 34492 - 36432 (-) CAZyme: GH97| GH97 Yes
- 36465 - 38912 (-) CAZyme: GH31|GH31 Yes
- 39048 - 42923 (-) TF: DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0035607 Yes
- 43308 - 43895 (+) other Yes
- 44041 - 46473 (-) CAZyme: GH51| GH51 Yes
- 46513 - 47469 (-) CAZyme: GH43_29|GH43_29 Yes
- 47595 - 49565 (-) CAZyme: CBM48|CE1| CE1 Yes
- 49668 - 51215 (-) CAZyme: CBM91|GH43_10| GH43_10 Yes
- 52026 - 54545 (+) CAZyme: GH115| GH115 Yes
- 54557 - 56488 (+) CAZyme: CE20|3.2.1.8| CE20|GH11 Yes
- 56501 - 57913 (+) TC: gnl|TC-DB|P94488|2.A.2.3.2 Yes
- 57939 - 59090 (+) CAZyme: GH10|GH10 Yes
- 59112 - 60086 (+) CAZyme: GH43_1|GH43_1 Yes
- 60190 - 62220 (+) CAZyme: GH67|GH67 Yes
uxuA 62228 - 63400 (+) other Yes
- 63397 - 64236 (+) other Yes
- 64559 - 68566 (-) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 Yes
- 69349 - 72540 (+) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 72560 - 74635 (+) TC: gnl|TC-DB|G0IYY9|8.A.46.1.6 Yes

PUL ID

PUL0648

PubMed

33667545, J Biol Chem. 2021 Jan-Jun;296:100500. doi: 10.1016/j.jbc.2021.100500. Epub 2021 Mar 2.

Title

A polysaccharide utilization locus from the gut bacterium Dysgonomonas mossii encodes functionally distinct carbohydrate esterases.

Author

Kmezik C, Mazurkewich S, Meents T, McKee LS, Idstrom A, Armeni M, Savolainen O, Branden G, Larsbrink J

Abstract

The gut microbiota plays a central role in human health by enzymatically degrading dietary fiber and concomitantly excreting short chain fatty acids that are associated with manifold health benefits. The polysaccharide xylan is abundant in dietary fiber but noncarbohydrate decorations hinder efficient cleavage by glycoside hydrolases (GHs) and need to be addressed by carbohydrate esterases (CEs). Enzymes from carbohydrate esterase families 1 and 6 (CE1 and 6) perform key roles in xylan degradation by removing feruloyl and acetate decorations, yet little is known about these enzyme families especially with regard to their diversity in activity. Bacteroidetes bacteria are dominant members of the microbiota and often encode their carbohydrate-active enzymes in multigene polysaccharide utilization loci (PULs). Here we present the characterization of three CEs found in a PUL encoded by the gut Bacteroidete Dysgonomonas mossii. We demonstrate that the CEs are functionally distinct, with one highly efficient CE6 acetyl esterase and two CE1 enzymes with feruloyl esterase activities. One multidomain CE1 enzyme contains two CE1 domains: an N-terminal domain feruloyl esterase, and a C-terminal domain with minimal activity on model substrates. We present the structure of the C-terminal CE1 domain with the carbohydrate-binding module that bridges the two CE1 domains, as well as a complex of the same protein fragment with methyl ferulate. The investment of D. mossii in producing multiple CEs suggests that improved accessibility of xylan for GHs and cleavage of covalent polysaccharide-polysaccharide and lignin-polysaccharide bonds are important enzyme activities in the gut environment.