Regulog XylR - Lactobacillaceae

Properties
Regulator type:	Transcription factor
Regulator family:	ROK
Regulation mode:	repressor
Biological process:	Xylose utilization
Effector:	Xylose
Phylum:	Firmicutes
Visualization:
	Allows to visualize regulog content in the context of metabolic pathways

Built upon 15 sites [see more]

Member of regulog collections

By taxonomy - Lactobacillaceae
By trascription factor - XylR
By TF family - ROK
By effector - Xylose
By pathway - Xylose utilization

Statistics of regulated genes
Genome	Genes	Operons
Lactobacillus acidophilus NCFM
Lactobacillus brevis ATCC 367	11	6
Lactobacillus casei ATCC 334
Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365
Lactobacillus fermentum IFO 3956	5	3
Lactobacillus helveticus DPC 4571
Lactobacillus johnsonii NCC 533
Lactobacillus plantarum WCFS1
Lactobacillus reuteri JCM 1112
Lactobacillus rhamnosus GG
Lactobacillus sakei subsp. sakei 23K
Lactobacillus salivarius subsp. salivarius UCC118
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293	3	2
Oenococcus oeni PSU-1
Pediococcus pentosaceus ATCC 25745	5	2

Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes																Function

CRON 1.
LVIS_2287	Lactobacillus acidophilus NCFM	* Lactobacillus brevis ATCC 367 Site: position = -90 score = 5.12814 sequence = GTTGGTTGCTTTCGACAACTAAT Gene: LVIS_2287: AraC-type DNA-binding protein	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	AraC-type DNA-binding protein
xynT2	Lactobacillus acidophilus NCFM	Lactobacillus brevis ATCC 367 Gene: LVIS_2286: Xyloside transporter XynT	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	Xyloside transporter XynT
xynB	Lactobacillus acidophilus NCFM	Lactobacillus brevis ATCC 367 Gene: LVIS_2285: Beta-xylosidase	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	Beta-xylosidase

CRON 2.
xynB2	Lactobacillus acidophilus NCFM	Lactobacillus brevis ATCC 367 Gene: LVIS_0375: Beta-xylosidase (EC 3.2.1.37)	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	* Lactobacillus fermentum IFO 3956 Site: position = -121 score = 5.4642 sequence = GTTTGTTTACTAAATAAACTAAC Gene: LAF_0405: Beta-xylosidase (EC 3.2.1.37)	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_0848: Beta-xylosidase (EC 3.2.1.37)	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	Beta-xylosidase (EC 3.2.1.37)
xynT3	Lactobacillus acidophilus NCFM	Lactobacillus brevis ATCC 367 Gene: LVIS_0374: Xyloside transporter XynT	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956 Gene: LAF_0406: Xyloside transporter XynT	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	Xyloside transporter XynT

CRON 3.
xylS	Lactobacillus acidophilus NCFM	* Lactobacillus brevis ATCC 367 Site: position = -150 score = 5.26024 sequence = GTTGGTTTAGTAAACCAATTTAC Gene: LVIS_0462: Alpha-xylosidase (EC 3.2.1.-)	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_1244: Alpha-xylosidase (EC 3.2.1.-)	Oenococcus oeni PSU-1	* Pediococcus pentosaceus ATCC 25745 Site: position = -182 score = 5.12047 sequence = GTTTGTTAGTTCTATTTACAAAC Gene: PEPE_0184: Alpha-xylosidase (EC 3.2.1.-)	Alpha-xylosidase (EC 3.2.1.-)

CRON 4.
xynT	Lactobacillus acidophilus NCFM	* Lactobacillus brevis ATCC 367 Site: position = -151 score = 5.26024 sequence = GTAAATTGGTTTACTAAACCAAC Gene: LVIS_0463: Xyloside transporter XynT	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_1245: Xyloside transporter XynT	Oenococcus oeni PSU-1	* Pediococcus pentosaceus ATCC 25745 Site: position = -66 score = 5.12047 sequence = GTTTGTAAATAGAACTAACAAAC Gene: PEPE_0185: Xyloside transporter XynT	Xyloside transporter XynT
xylR	Lactobacillus acidophilus NCFM	2 Lactobacillus brevis ATCC 367* Site: position = -154 score = 5.43649 sequence = GTTGGTTGGTTCACTGAACCATG Gene: LVIS_2109: Xylose repressor XylR, ROK family Gene: LVIS_0464: Xylose repressor XylR, ROK family	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956 Gene: LAF_0400: Xylose repressor XylR, ROK family	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_0129: Xylose repressor XylR, ROK family	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745 Gene: PEPE_0186: Xylose repressor XylR, ROK family	Xylose repressor XylR, ROK family
xylA	Lactobacillus acidophilus NCFM	* Lactobacillus brevis ATCC 367 Site: position = -42 score = 5.71647 sequence = GTTGGTTGTCGCAACGAACTAAC Gene: LVIS_0183: Xylose isomerase (EC 5.3.1.5)	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	* Lactobacillus fermentum IFO 3956 Site: position = -53 score = 5.05479 sequence = GTTAGTTGTTTTAAAAAACCAAT Gene: LAF_0402: Xylose isomerase (EC 5.3.1.5)	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	* Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -59 score = 5.79516 sequence = GTTGGTTGGTGTAACCAACTATG Gene: LEUM_0130: Xylose isomerase (EC 5.3.1.5)	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745 Gene: PEPE_0187: Xylose isomerase (EC 5.3.1.5)	Xylose isomerase (EC 5.3.1.5)
xylB	Lactobacillus acidophilus NCFM	Lactobacillus brevis ATCC 367 Gene: LVIS_0184: Xylulose kinase (EC 2.7.1.17)	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956 Gene: LAF_0403: Xylulose kinase (EC 2.7.1.17)	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_0131: Xylulose kinase (EC 2.7.1.17)	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745 Gene: PEPE_0188: Xylulose kinase (EC 2.7.1.17)	Xylulose kinase (EC 2.7.1.17)

CRON 5.
LVIS_0185	Lactobacillus acidophilus NCFM	* Lactobacillus brevis ATCC 367 Site: position = -111 score = 5.42824 sequence = CATGGTTGGTTGCGGCAATCAAC Site: position = -107 score = 6.08539 sequence = GTTGGTTGCGGCAATCAACCAAC Gene: LVIS_0185: hypothetical protein	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	Lactobacillus fermentum IFO 3956	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	hypothetical protein
xylT	Lactobacillus acidophilus NCFM	Lactobacillus brevis ATCC 367 Gene: LVIS_0186: D-xylose proton-symporter XylT	Lactobacillus casei ATCC 334	Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365	* Lactobacillus fermentum IFO 3956 Site: position = -90 score = 5.23473 sequence = GTTAGTTTTTATCAGCAACTAAC Gene: LAF_0401: D-xylose proton-symporter XylT	Lactobacillus helveticus DPC 4571	Lactobacillus johnsonii NCC 533	Lactobacillus plantarum WCFS1	Lactobacillus reuteri JCM 1112	Lactobacillus rhamnosus GG	Lactobacillus sakei subsp. sakei 23K	Lactobacillus salivarius subsp. salivarius UCC118	* Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -87 score = 5.64869 sequence = GTTAGTTGGTTGCGTAAATAAAC Site: position = -83 score = 5.68123 sequence = GTTGGTTGCGTAAATAAACTAAC Gene: LEUM_0128: D-xylose proton-symporter XylT	Oenococcus oeni PSU-1	Pediococcus pentosaceus ATCC 25745	D-xylose proton-symporter XylT

Bluish color - the gene is in regulated operon. Different regulated operons are shown in different shades of blue.

Red color - the gene is in non-regulated operon.

Gray color - the orthologous gene is absent.

The star symbol - the TFBS is located in upstream region of this gene.

The number - the numeber of homologs (shown only if it is greater than one).

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	Regulatory Sites	[ FASTA format ]	DOWNLOAD

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes -- version 3.2 --

Regulog XylR - Lactobacillaceae

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 3.2 --