Regulog TPP - Bifidobacteriaceae

Properties
Regulator type:	RNA regulatory element
Name:	TPP
RFAM:	RF00059
Regulation mode:
Biological process:	Thiamine biosynthesis
Effector:	Thiamine pyrophosphate
Phylum:	Actinobacteria

Member of regulog collections

By taxonomy - Bifidobacteriaceae
By RNA motif - TPP
By effector - Thiamine pyrophosphate
By pathway - Thiamine biosynthesis

Statistics of regulated genes
Genome	Genes	Operons
Bifidobacterium adolescentis ATCC 15703	7	2
Bifidobacterium longum NCC2705	10	4
Bifidobacterium gallicum DSM 20093	6	3
Bifidobacterium dentium Bd1	12	5
Bifidobacterium animalis subsp. lactis AD011	10	5
Bifidobacterium angulatum DSM 20098	11	4
Bifidobacterium bifidum NCIMB 41171	4	2
Gardnerella vaginalis 409-05	11	5
Bifidobacterium breve DSM 20213	8	4

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

CRON 1.
thiME	Bifidobacterium adolescentis ATCC 15703	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	* Gardnerella vaginalis 409-05 Site: position = -98 score = 57.0 sequence = AGGATGGTTCGGAGT... Gene: HMPREF0424_1158: Hydroxyethylthiazole kinase (EC 2.7.1.50) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3)	Bifidobacterium breve DSM 20213	Hydroxyethylthiazole kinase (EC 2.7.1.50) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3)

CRON 2.
thiP	Bifidobacterium adolescentis ATCC 15703	Bifidobacterium longum NCC2705	* Bifidobacterium gallicum DSM 20093 Site: position = -235 score = 43.41 sequence = AACGCGACACGGGGT... Gene: BIFGAL_01225: Thiamin ABC transporter, permease protein	Bifidobacterium dentium Bd1	* Bifidobacterium animalis subsp. lactis AD011 Site: position = -126 score = 50.67 sequence = GAACAGCGACACGGG... Gene: BLA_1029: Thiamin ABC transporter, permease protein	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	* Gardnerella vaginalis 409-05 Site: position = -115 score = 53.96 sequence = GACCTCAGACACGGG... Gene: HMPREF0424_0660: Thiamin ABC transporter, permease protein	Bifidobacterium breve DSM 20213	Thiamin ABC transporter, permease protein
thiB	Bifidobacterium adolescentis ATCC 15703	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093 Gene: BIFGAL_01226: Thiamin ABC transporter, substrate-binding component	Bifidobacterium dentium Bd1	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_1028: Thiamin ABC transporter, substrate-binding component	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05 Gene: HMPREF0424_0659: Thiamin ABC transporter, substrate-binding component	Bifidobacterium breve DSM 20213	Thiamin ABC transporter, substrate-binding component
thiQ	Bifidobacterium adolescentis ATCC 15703	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093 Gene: BIFGAL_01227: Thiamin ABC transporter, ATPase component	Bifidobacterium dentium Bd1	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_1027: Thiamin ABC transporter, ATPase component	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05 Gene: HMPREF0424_0658: Thiamin ABC transporter, ATPase component	Bifidobacterium breve DSM 20213	Thiamin ABC transporter, ATPase component

CRON 3.
tenA	Bifidobacterium adolescentis ATCC 15703	* Bifidobacterium longum NCC2705 Site: position = -157 score = 33.31 sequence = AGGCGCATTGCAGGG... Gene: BL0804: Thiaminase II (EC 3.5.99.2)	Bifidobacterium gallicum DSM 20093 Gene: BIFGAL_01832: Thiaminase II (EC 3.5.99.2)	* Bifidobacterium dentium Bd1 Site: position = -107 score = 62.69 sequence = CGGCGTAATGCAGGG... Gene: BDP_1341: Thiaminase II (EC 3.5.99.2)	* Bifidobacterium animalis subsp. lactis AD011 Site: position = -89 score = 55.74 sequence = CGAAGATGCGGGGGG... Gene: BLA_1213: Thiaminase II (EC 3.5.99.2)	* Bifidobacterium angulatum DSM 20098 Site: position = -118 score = 56.18 sequence = GCAAATTGCAGGGGA... Gene: BIFANG_01057: Thiaminase II (EC 3.5.99.2)	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05	* Bifidobacterium breve DSM 20213 Site: position = -156 score = 37.95 sequence = GCGCATTGCAGGGGA... Gene: BIFBRE_01283: Thiaminase II (EC 3.5.99.2)	Thiaminase II (EC 3.5.99.2)

CRON 4.
thiM	* Bifidobacterium adolescentis ATCC 15703 Site: position = -103 score = 59.76 sequence = TAAACATGCGGGGGT... Gene: BAD_1144: Hydroxyethylthiazole kinase (EC 2.7.1.50)	* Bifidobacterium longum NCC2705 Site: position = -100 score = 59.25 sequence = CACTGTAATGCAGGG... Gene: BL0115: Hydroxyethylthiazole kinase (EC 2.7.1.50)	* Bifidobacterium gallicum DSM 20093 Site: position = -117 score = 48.26 sequence = GAATCAAGCAGGGGG... Gene: BIFGAL_00330: Hydroxyethylthiazole kinase (EC 2.7.1.50)	* Bifidobacterium dentium Bd1 Site: position = -103 score = 57.41 sequence = TGTACATGCAGGGGA... Gene: BDP_1597: Hydroxyethylthiazole kinase (EC 2.7.1.50)	* Bifidobacterium animalis subsp. lactis AD011 Site: position = -88 score = 45.91 sequence = ACACATGTCAGGGGA... Gene: BLA_0814: Hydroxyethylthiazole kinase (EC 2.7.1.50)	* Bifidobacterium angulatum DSM 20098 Site: position = -100 score = 56.75 sequence = TGTACATGCAGGGGG... Gene: BIFANG_01690: Hydroxyethylthiazole kinase (EC 2.7.1.50)	* Bifidobacterium bifidum NCIMB 41171 Site: position = -102 score = 47.89 sequence = GGGCACAATGCAGGG... Gene: BbifN4_010100001942: Hydroxyethylthiazole kinase (EC 2.7.1.50)	Gardnerella vaginalis 409-05	* Bifidobacterium breve DSM 20213 Site: position = -201 score = 58.15 sequence = CAACGTAATGCAGGG... Gene: BIFBRE_00589: Hydroxyethylthiazole kinase (EC 2.7.1.50)	Hydroxyethylthiazole kinase (EC 2.7.1.50)
thiEC	Bifidobacterium adolescentis ATCC 15703	Bifidobacterium longum NCC2705 Gene: BL0114: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1 Gene: BDP_1598: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_01691: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC	Bifidobacterium bifidum NCIMB 41171 Gene: BbifN4_010100001937: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC	* Gardnerella vaginalis 409-05 Site: position = -102 score = 61.75 sequence = ACATTTTGCAGGGGT... Gene: HMPREF0424_0892: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00588: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC	Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Thiamin biosynthesis protein ThiC
thiD	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_1146: Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Bifidobacterium longum NCC2705 Gene: BL0113: Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Bifidobacterium gallicum DSM 20093 Gene: BIFGAL_00331: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Bifidobacterium dentium Bd1 Gene: BDP_1599: Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_0815: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) / Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_01692: Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Bifidobacterium bifidum NCIMB 41171 Gene: BbifN4_010100001922: Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Gardnerella vaginalis 409-05	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00586: Phosphomethylpyrimidine kinase (EC 2.7.4.7)	Phosphomethylpyrimidine kinase (EC 2.7.4.7)
COG0011	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_1147: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium longum NCC2705 Gene: BL0112: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium gallicum DSM 20093 Gene: BIFGAL_00345: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium dentium Bd1 Gene: BDP_1600: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_0816: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_01693: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium bifidum NCIMB 41171 Gene: BbifN4_010100001917: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Gardnerella vaginalis 409-05 Gene: HMPREF0424_0453: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00585: Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative	Thiamin/hydroxymethyl pyrimidine-binding protein-like, putative
thiE	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_1145: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3)	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05	Bifidobacterium breve DSM 20213	Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3)

CRON 5.
tenA2	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_0874: Thiaminase II (EC 3.5.99.2)	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093	* Bifidobacterium dentium Bd1 Site: position = -165 score = 55.18 sequence = CGGGCACAGACACGG... Gene: BDP_2140: Thiaminase II (EC 3.5.99.2)	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05	Bifidobacterium breve DSM 20213	Thiaminase II (EC 3.5.99.2)

CRON 6.
ykoE	* Bifidobacterium adolescentis ATCC 15703 Site: position = -135 score = 55.85 sequence = CAGGCGCAGACACGG... Gene: BAD_0950: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	* Bifidobacterium longum NCC2705 Site: position = -212 score = 47.99 sequence = GGGAGTTGACACGGG... Gene: BL1071: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	* Bifidobacterium gallicum DSM 20093 Site: position = -271 score = 51.06 sequence = CGTCAACCGACACGG... Gene: BIFGAL_01797: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	* Bifidobacterium dentium Bd1 Site: position = -134 score = 55.9 sequence = CTGTCACAGACACGG... Gene: BDP_1328: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	2 Bifidobacterium animalis subsp. lactis AD011* Site: position = -134 score = 57.76 sequence = TCGATGTAGACACGG... Gene: BLA_1225: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Site: position = -146 score = 52.85 sequence = GGCATCGACACGGGA... Gene: BLA_1236: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	* Bifidobacterium angulatum DSM 20098 Site: position = -125 score = 46.26 sequence = GGCAATGACACGGGA... Gene: BIFANG_01019: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium bifidum NCIMB 41171	* Gardnerella vaginalis 409-05 Site: position = -288 score = 50.1 sequence = TCAATCGACACGGGT... Gene: HMPREF0424_0412: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	* Bifidobacterium breve DSM 20213 Site: position = -170 score = 46.26 sequence = GGAGTTGACACGGGA... Gene: BIFBRE_00957: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine
ykoD	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_0949: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium longum NCC2705 Gene: BL1070: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium gallicum DSM 20093 Gene: BIFGAL_01796: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium dentium Bd1 Gene: BDP_1327: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium animalis subsp. lactis AD011 Gene: BLA_1237: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	2 Bifidobacterium angulatum DSM 20098 Gene: BIFANG_01029: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Gene: BIFANG_01020: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05 Gene: HMPREF0424_0414: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine / Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00958: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine
ykoC	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_0948: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium longum NCC2705 Gene: BL1069: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1 Gene: BDP_1326: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_01021: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Bifidobacterium bifidum NCIMB 41171	Gardnerella vaginalis 409-05	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00959: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine	Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine

CRON 7.
thiO	Bifidobacterium adolescentis ATCC 15703	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098	Bifidobacterium bifidum NCIMB 41171	* Gardnerella vaginalis 409-05 Site: position = -93 score = 46.84 sequence = TACGAAACGCGGGAG... Gene: HMPREF0424_1286: Glycine oxidase ThiO (EC 1.4.3.19)	Bifidobacterium breve DSM 20213	Glycine oxidase ThiO (EC 1.4.3.19)
thiS	Bifidobacterium adolescentis ATCC 15703	* Bifidobacterium longum NCC2705 Site: position = -279 score = 47.63 sequence = AACCGTAACGAACGG... Gene: BL1055a: Sulfur carrier protein ThiS	Bifidobacterium gallicum DSM 20093	* Bifidobacterium dentium Bd1 Site: position = -440 score = 40.04 sequence = GCACAACCGAACGGG... Gene: BDP_0149: Sulfur carrier protein ThiS	Bifidobacterium animalis subsp. lactis AD011	* Bifidobacterium angulatum DSM 20098 Site: position = -265 score = 37.48 sequence = GCACAACCGAACGGG... Gene: BIFANG_00619: Sulfur carrier protein ThiS	* Bifidobacterium bifidum NCIMB 41171 Site: position = -201 score = 45.5 sequence = GGCGCAACCGAACGG... Gene: BbifN4_010100006723: Sulfur carrier protein ThiS	2 Gardnerella vaginalis 409-05 Gene: HMPREF0424_0776: Sulfur carrier protein ThiS Gene: HMPREF0424_1285: Sulfur carrier protein ThiS	* Bifidobacterium breve DSM 20213 Site: position = -279 score = 51.35 sequence = CGTAACGAACGGGAG... Gene: BIFBRE_00980: Sulfur carrier protein ThiS	Sulfur carrier protein ThiS
thiG	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_0089: Thiazole biosynthesis protein ThiG	Bifidobacterium longum NCC2705 Gene: BL1055: Thiazole biosynthesis protein ThiG	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1 Gene: BDP_0147: Thiazole biosynthesis protein ThiG	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_00617: Thiazole biosynthesis protein ThiG	Bifidobacterium bifidum NCIMB 41171 Gene: BbifN4_010100006718: Thiazole biosynthesis protein ThiG	2 Gardnerella vaginalis 409-05 Gene: HMPREF0424_0778: Thiazole biosynthesis protein ThiG Gene: HMPREF0424_1284: Thiazole biosynthesis protein ThiG	Bifidobacterium breve DSM 20213 Gene: BIFBRE_00981: Thiazole biosynthesis protein ThiG	Thiazole biosynthesis protein ThiG
thiF	Bifidobacterium adolescentis ATCC 15703 Gene: BAD_0090: Sulfur carrier protein adenylyltransferase ThiF	Bifidobacterium longum NCC2705	Bifidobacterium gallicum DSM 20093	Bifidobacterium dentium Bd1 Gene: BDP_0148: Sulfur carrier protein adenylyltransferase ThiF	Bifidobacterium animalis subsp. lactis AD011	Bifidobacterium angulatum DSM 20098 Gene: BIFANG_00618: Sulfur carrier protein adenylyltransferase ThiF	Bifidobacterium bifidum NCIMB 41171	2 Gardnerella vaginalis 409-05 Gene: HMPREF0424_0777: Sulfur carrier protein adenylyltransferase ThiF Gene: HMPREF0424_1283: Sulfur carrier protein adenylyltransferase ThiF	Bifidobacterium breve DSM 20213	Sulfur carrier protein adenylyltransferase ThiF

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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	Regulated Genes	[ Tab delimited format ]	DOWNLOAD
	Regulatory Sites	[ FASTA format ]	DOWNLOAD

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

Regulog TPP - Bifidobacteriaceae

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