PUL ID

PUL0395

PubMed

21460081, J Bacteriol. 2011 Jun;193(11):2838-50. doi: 10.1128/JB.00222-11. Epub 2011 Apr 1.

Characterization method

isothermal calorimetric titration,electrophoretic mobility shift assay,Northern Blot

Genomic accession number

DQ868502

Nucelotide position range

1562-38010

Substrate

arabinose,arabinan

Loci

ACE73663.1-ACE73687.1

Species

Geobacillus stearothermophilus/1422

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

araP - ACE73663.1 0 - 1008 (+) DQ868502.2:1562-2570 -
araS - ACE73664.1 1041 - 2817 (+) DQ868502.2:2603-4379 -
araT - ACE73665.1 2964 - 4179 (+) DQ868502.2:4526-5741 -
araE - ACE73666.1 4357 - 5446 (+) DQ868502.2:5919-7008 -
- - ACE73667.1 5107 - 6568 (-) DQ868502.2:6669-8130 -
IE1 - ACE73668.1 6809 - 8177 (+) DQ868502.2:8371-9739 -
araG - ACE73669.1 8626 - 10168 (+) DQ868502.2:10188-11730 -
araH - ACE73670.1 10169 - 11393 (+) DQ868502.2:11731-12955 -
araR - ACE73671.1 11698 - 12793 (+) DQ868502.2:13260-14355 -
araD - ACE73672.1 12886 - 13573 (+) DQ868502.2:14448-15135 -
araB - ACE73673.1 13589 - 15284 (+) DQ868502.2:15151-16846 -
araA - ACE73674.1 15297 - 16791 (+) DQ868502.2:16859-18353 -
abp - ACE73675.1 17230 - 18079 (+) DQ868502.2:18792-19641 -
abnB - ACE73676.1 19588 - 20536 (+) DQ868502.2:21150-22098 -
abnE - ACE73677.1 20863 - 22228 (+) DQ868502.2:22425-23790 -
abnF - ACE73678.1 22314 - 23241 (+) DQ868502.2:23876-24803 -
abnJ - ACE73679.1 23240 - 24149 (+) DQ868502.2:24802-25711 -
abnA - ACE73680.1 24178 - 26725 (+) DQ868502.2:25740-28287 -
abfB - ACE73681.1 26988 - 28509 (+) DQ868502.2:28550-30071 -
abfA - ACE73682.1 28835 - 30344 (+) DQ868502.2:30397-31906 -
araJ - ACE73683.1 30407 - 31403 (+) DQ868502.2:31969-32965 -
araK - ACE73684.1 31421 - 32474 (+) DQ868502.2:32983-34036 -
araL - ACE73685.1 32478 - 33300 (+) DQ868502.2:34040-34862 -
araM - ACE73686.1 33380 - 34511 (+) DQ868502.2:34942-36073 -
araN - ACE73687.1 34520 - 36449 (+) DQ868502.2:36082-38011 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1008 (+) TC: gnl|TC-DB|G4FGN5|3.A.1.2.20 Yes
- 1042 - 2817 (+) TC: gnl|TC-DB|F4LXP4|8.A.59.2.1 Yes
- 2965 - 4179 (+) STP: STP|Response_reg,STP|HTH_18 Yes
- 4358 - 5446 (+) TC: gnl|TC-DB|P25548|3.A.1.2.5 Yes
- 5108 - 6568 (-) other Yes
- 6810 - 8177 (+) other Yes
- 8627 - 10168 (+) TC: gnl|TC-DB|O05176|3.A.1.2.5 Yes
- 10170 - 11393 (+) TC: gnl|TC-DB|O05177|3.A.1.2.5 Yes
- 11699 - 12793 (+) STP: STP|GntR,STP|Peripla_BP_3 Yes
- 12887 - 13573 (+) other Yes
- 13590 - 15284 (+) other Yes
- 15298 - 16791 (+) other Yes
- 17231 - 18079 (+) other Yes
- 19589 - 20536 (+) CAZyme: GH43|GH43_5 Yes
- 20864 - 22228 (+) STP: STP|SBP_bac_1 Yes
- 22315 - 23241 (+) TC: gnl|TC-DB|Q7WWQ9|3.A.1.1.20 Yes
- 23241 - 24149 (+) TC: gnl|TC-DB|Q9X9R5|3.A.1.1.23 Yes
- 24179 - 26725 (+) CAZyme: GH43|GH43_4|CBM54 Yes
- 26989 - 28509 (+) CAZyme: GH51 Yes
- 28836 - 30344 (+) CAZyme: GH51 Yes
- 30408 - 31403 (+) other Yes
- 31422 - 32474 (+) other Yes
- 32479 - 33300 (+) other Yes
- 33381 - 34511 (+) other Yes
- 34521 - 36449 (+) CAZyme: GH127 Yes

PUL ID

PUL0395

PubMed

21460081, J Bacteriol. 2011 Jun;193(11):2838-50. doi: 10.1128/JB.00222-11. Epub 2011 Apr 1.

Title

The L-Arabinan utilization system of Geobacillus stearothermophilus.

Author

Shulami S, Raz-Pasteur A, Tabachnikov O, Gilead-Gropper S, Shner I, Shoham Y

Abstract

Geobacillus stearothermophilus T-6 is a thermophilic soil bacterium that has a 38-kb gene cluster for the utilization of arabinan, a branched polysaccharide that is part of the plant cell wall. The bacterium encodes a unique three-component regulatory system (araPST) that includes a sugar-binding lipoprotein (AraP), a histidine sensor kinase (AraS), and a response regulator (AraT) and lies adjacent to an ATP-binding cassette (ABC) arabinose transport system (araEGH). The lipoprotein (AraP) specifically bound arabinose, and gel mobility shift experiments showed that the response regulator, AraT, binds to a 139-bp fragment corresponding to the araE promoter region. Taken together, the results showed that the araPST system appeared to sense extracellular arabinose and to activate a specific ABC transporter for arabinose (AraEGH). The promoter regions of the arabinan utilization genes contain a 14-bp inverted repeat motif resembling an operator site for the arabinose repressor, AraR. AraR was found to bind specifically to these sequences, and binding was efficiently prevented in the presence of arabinose, suggesting that arabinose is the molecular inducer of the arabinan utilization system. The expression of the arabinan utilization genes was reduced in the presence of glucose, indicating that regulation is also mediated via a catabolic repression mechanism. The cluster also encodes a second putative ABC sugar transporter (AbnEFJ) whose sugar-binding lipoprotein (AbnE) was shown to interact specifically with linear and branched arabino-oligosaccharides. The final degradation of the arabino-oligosaccharides is likely carried out by intracellular enzymes, including two alpha-l-arabinofuranosidases (AbfA and AbfB), a beta-l-arabinopyranosidase (Abp), and an arabinanase (AbnB), all of which are encoded in the 38-kb cluster.