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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0653

PubMed

33889146, Front Microbiol. 2021 Apr 6;12:658657. doi: 10.3389/fmicb.2021.658657. eCollection 2021.

Characterization method

gene deletion mutant and growth assay,complementation study,enzyme activity assay,RNA-Seq,electrophoretic mobility shift assay

Genomic accession number

AL645882.2

Nucelotide position range

3831534-3854645

Substrate

agar

Loci

SCO3471-SCO3487

Species

Streptomyces coelicolor A3(2)/1902

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

SCO3471 - CAB61795.1 171 - 1101 (-) AL645882.2:3831705-3832635 -
SCO3472 - CAB61796.1 1454 - 1718 (-) AL645882.2:3832988-3833252 -
SCO3473 - CAB61797.1 2521 - 3169 (-) AL645882.2:3834055-3834703 -
SCO3474 - CAB61798.1 3207 - 4209 (-) AL645882.2:3834741-3835743 -
SCO3475 - CAB61799.1 4336 - 5470 (-) AL645882.2:3835870-3837004 -
SCO3476 - CAB61800.1 5682 - 6438 (-) AL645882.2:3837216-3837972 -
SCO3477 - CAB61801.1 6434 - 7469 (-) AL645882.2:3837968-3839003 -
SCO3478 - CAB61802.1 7465 - 8500 (-) AL645882.2:3838999-3840034 -
SCO3479 - CAB61803.1 8861 - 11849 (-) AL645882.2:3840395-3843383 -
SCO3480 - CAB61804.1 11989 - 13075 (-) AL645882.2:3843523-3844609 -
SCO3481 - CAB61805.1 13136 - 14249 (-) AL645882.2:3844670-3845783 -
SCO3482 - CAB61806.1 14275 - 15157 (-) AL645882.2:3845809-3846691 -
SCO3483 - CAB61807.1 15168 - 16116 (-) AL645882.2:3846702-3847650 -
SCO3484 - CAB61808.1 16151 - 17462 (-) AL645882.2:3847685-3848996 -
SCO3485 - CAB61809.1 17643 - 18693 (-) AL645882.2:3849177-3850227 -
SCO3486 - CAB61810.1 18854 - 20333 (+) AL645882.2:3850388-3851867 -
SCO3487 - CAB61811.1 20715 - 23112 (+) AL645882.2:3852249-3854646 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 172 - 1101 (-) CAZyme: GH16_16|GH16_16 Yes
- 1455 - 1718 (-) TF: DBD-Pfam|HTH_8 Yes
- 2522 - 3169 (-) other Yes
- 3208 - 4209 (-) STP: STP|PfkB Yes
- 4337 - 5470 (-) other Yes
- 5683 - 6438 (-) other Yes
- 6435 - 7469 (-) other Yes
- 7466 - 8500 (-) other Yes
- 8862 - 11849 (-) CAZyme: GH2| GH2 Yes
- 11990 - 13075 (-) other Yes
- 13137 - 14249 (-) CAZyme: GH117|GH117 Yes
- 14276 - 15157 (-) TC: gnl|TC-DB|P77716|3.A.1.1.46 Yes
- 15169 - 16116 (-) TC: gnl|TC-DB|O51924|3.A.1.1.7 Yes
- 16152 - 17462 (-) TC: gnl|TC-DB|Q7AKP1|3.A.1.1.44 Yes
- 17644 - 18693 (-) TF: DBD-Pfam|LacI,DBD-SUPERFAMILY|0044558 Yes
- 18855 - 20333 (+) other Yes
- 20716 - 23112 (+) CAZyme: GH50|GH50 Yes

PUL ID

PUL0653

PubMed

33889146, Front Microbiol. 2021 Apr 6;12:658657. doi: 10.3389/fmicb.2021.658657. eCollection 2021.

Title

LacI-Family Transcriptional Regulator DagR Acts as a Repressor of the Agarolytic Pathway Genes in Streptomyces coelicolor A3(2).

Author

Tsevelkhoroloo M, Shim SH, Lee CR, Hong SK, Hong YS

Abstract

Actinobacteria utilize various polysaccharides in the soil as carbon source by degrading them via extracellular hydrolytic enzymes. Agarose, a marine algal polysaccharide composed of D-galactose and 3,6-anhydro-L-galactose (AHG), is one of the carbon sources used by S. coelicolor A3(2). However, little is known about agar hydrolysis in S. coelicolor A3(2), except that the regulation of agar hydrolysis metabolism is strongly inhibited by glucose as in the catabolic pathways of other polysaccharides. In this study, we elucidated the role of DagR in regulating the expression of three agarase genes (dagA, dagB, and dagC) in S. coelicolor A3(2) by developing a dagR-deletion mutant (Deltasco3485). We observed that the Deltasco3485 mutant had increased mRNA level of the agarolytic pathway genes and 1.3-folds higher agarase production than the wild type strain, indicating that the dagR gene encodes a cluster-suited repressor. Electrophoretic mobility shift assay revealed that DagR bound to the upstream regions of the three agarase genes. DNase 1 footprinting analysis demonstrated that a palindromic sequence present in the upstream region of the three agarase genes was essential for DagR-binding. Uniquely, the DNA-binding activity of DagR was inhibited by AHG, one of the final degradation products of agarose. AHG-induced agarase production was not observed in the Deltasco3485 mutant, as opposed to that in the wild type strain. Therefore, DagR acts as a repressor that binds to the promoter region of the agarase genes, inhibits gene expression at the transcriptional level, and is derepressed by AHG. This is the first report on the regulation of gene expression regarding agar metabolism in S. coelicolor A3(2).