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

PUL0029

PubMed

30564851, Appl Microbiol Biotechnol. 2019 Feb;103(3):1299-1310. doi: 10.1007/s00253-018-9566-4. Epub 2018 Dec 18.

Characterization method

enzyme activity assay

Genomic accession number

NC_015067.1

Nucelotide position range

2209677-2271573

Substrate

arabinogalactan

Loci

BLLJ_RS09480-BLLJ_RS09595

Species

Bifidobacterium longum/216816

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BLLJ_RS09480 WP_007055050.1 0 - 1830 (-) NC_015067.1:2209677-2211507 -
- BLLJ_RS09485 WP_013582997.1 2043 - 3915 (-) NC_015067.1:2211720-2213592 -
- BLLJ_RS09490 WP_016507763.1 4101 - 4623 (-) NC_015067.1:2213778-2214300 -
- BLLJ_RS09495 WP_013582999.1 4984 - 5578 (+) NC_015067.1:2214661-2215255 -
- BLLJ_RS09500 WP_013583000.1 6033 - 9870 (-) NC_015067.1:2215710-2219547 -
- BLLJ_RS09505 WP_013583001.1 10081 - 14623 (-) NC_015067.1:2219758-2224300 -
- BLLJ_RS09510 WP_007052945.1 14926 - 16423 (-) NC_015067.1:2224603-2226100 -
- BLLJ_RS09515 WP_013583003.1 16762 - 18286 (-) NC_015067.1:2226439-2227963 -
- BLLJ_RS09520 WP_032740909.1 18473 - 22157 (-) NC_015067.1:2228150-2231834 -
- BLLJ_RS09525 WP_013583005.1 22245 - 22947 (-) NC_015067.1:2231922-2232624 -
- BLLJ_RS09530 WP_007057465.1 23090 - 23660 (+) NC_015067.1:2232767-2233337 -
- BLLJ_RS09535 WP_007057459.1 23882 - 25364 (+) NC_015067.1:2233559-2235041 -
- BLLJ_RS09540 WP_013583006.1 25486 - 31441 (-) NC_015067.1:2235163-2241118 -
- BLLJ_RS09545 WP_007057436.1 32028 - 33132 (+) NC_015067.1:2241705-2242809 -
- BLLJ_RS09550 WP_013583007.1 33236 - 38231 (-) NC_015067.1:2242913-2247908 -
- BLLJ_RS09555 WP_013583008.1 38357 - 44360 (-) NC_015067.1:2248034-2254037 -
- BLLJ_RS09560 WP_013583009.1 45248 - 48989 (-) NC_015067.1:2254925-2258666 -
- BLLJ_RS09565 WP_013583010.1 49232 - 52526 (-) NC_015067.1:2258909-2262203 -
- BLLJ_RS09570 WP_013583011.1 52872 - 56070 (-) NC_015067.1:2262549-2265747 -
- BLLJ_RS09575 WP_013583012.1 56407 - 57013 (-) NC_015067.1:2266084-2266690 -
- BLLJ_RS09580 WP_007056981.1 57218 - 58061 (-) NC_015067.1:2266895-2267738 -
- BLLJ_RS09585 WP_007052964.1 58060 - 58915 (-) NC_015067.1:2267737-2268592 -
- BLLJ_RS09590 WP_007054086.1 59297 - 60314 (+) NC_015067.1:2268974-2269991 -
- BLLJ_RS09595 WP_013583013.1 60568 - 61897 (-) NC_015067.1:2270245-2271574 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1830 (-) TC: gnl|TC-DB|E8MFM3|3.A.1.135.6 Yes
- 2044 - 3915 (-) TC: gnl|TC-DB|E8MFM4|3.A.1.135.6 Yes
- 4102 - 4623 (-) TF: DBD-Pfam|MarR,DBD-SUPERFAMILY|0040586 Yes
- 4985 - 5578 (+) other Yes
- 6034 - 9870 (-) CAZyme: GH43_24|GH43 Yes
- 10082 - 14623 (-) CAZyme: CBM13|GH30|GH30_5 Yes
- 14927 - 16423 (-) TF: DBD-SUPERFAMILY|0045030 Yes
- 16763 - 18286 (-) TC: gnl|TC-DB|F2HQ24|2.A.3.1.20 Yes
- 18474 - 22157 (-) other Yes
- 22246 - 22947 (-) TC: gnl|TC-DB|A8TDW7|3.A.1.122.7 Yes
- 23091 - 23660 (+) TF: DBD-Pfam|HTH_11 Yes
- 23883 - 25364 (+) TC: gnl|TC-DB|P15993|2.A.3.1.3 Yes
- 25487 - 31441 (-) CAZyme: GH146 Yes
- 32029 - 33132 (+) other Yes
- 33237 - 38231 (-) CAZyme: GH43_22|GH43|GH43_34 Yes
- 38358 - 44360 (-) CAZyme: GH43_22|GH43|GH43_26 Yes
- 45249 - 48989 (-) CAZyme: GH43_27|GH43 Yes
- 49233 - 52526 (-) CAZyme: GH43_22 Yes
- 52873 - 56070 (-) CAZyme: GH43_22 Yes
- 56408 - 57013 (-) TC: gnl|TC-DB|E4R229|9.B.28.1.3 Yes
- 57219 - 58061 (-) TC: gnl|TC-DB|Q8NMV5|3.A.1.1.45 Yes
- 58061 - 58915 (-) TC: gnl|TC-DB|Q8NMV4|3.A.1.1.45 Yes
- 59298 - 60314 (+) TF: DBD-Pfam|LacI,DBD-SUPERFAMILY|0036955 Yes
- 60569 - 61897 (-) TC: gnl|TC-DB|Q8NMV3|3.A.1.1.45 Yes

PUL ID

PUL0029

PubMed

30564851, Appl Microbiol Biotechnol. 2019 Feb;103(3):1299-1310. doi: 10.1007/s00253-018-9566-4. Epub 2018 Dec 18.

Title

Degradative enzymes for type II arabinogalactan side chains in Bifidobacterium longum subsp. longum.

Author

Fujita K, Sakamoto A, Kaneko S, Kotake T, Tsumuraya Y, Kitahara K

Abstract

Type II arabinogalactan (AG) is a soluble prebiotic fiber stimulating the proliferation of bifidobacteria in the human gut. Larch AG, which is comprised of type II AG, is known to be utilized as an energy source for Bifidobacterium longum subsp. longum (B. longum). We have previously characterized GH43_24 exo-beta-1,3-galactanase (Bl1,3Gal) for the degradation of type II AG main chains in B. longum JCM1217. In this study, we characterized GH30_5 exo-beta-1,6-galactobiohydrolase (Bl1,6Gal) and GH43_22 alpha-L-arabinofuranosidase (BlArafA), which are degradative enzymes for type II AG side chains in cooperation with exo-beta-1,3-galactanase. The recombinant exo-beta-1,6-galactobiohydrolase specifically released beta-1,6-galactobiose (beta-1,6-Gal(2)) from the nonreducing terminal of beta-1,6-galactooligosaccharides, and the recombinant alpha-L-arabinofuranosidase released arabinofuranose (Araf) from alpha-1,3-Araf-substituted beta-1,6-galactooligosaccharides. beta-1,6-Gal(2) was additively released from larch AG by the combined use of type II AG degradative enzymes, including Bl1,3Gal, Bl1,6Gal, and BlArafA. The gene cluster encoding the type II AG degradative enzymes is conserved in all B. longum strains, but not in other bifidobacterial species. The degradative enzymes for type II AG side chains are thought to be important for the acquisition of type II AG in B. longum.