Regulog TPP - Lactobacillaceae
| Regulator type: | RNA regulatory element |
| Name: | TPP |
| RFAM: | RF00059 |
| Regulation mode: | |
| Biological process: | Thiamine biosynthesis |
| Effector: | Thiamine pyrophosphate |
| Phylum: | Firmicutes |
Member of regulog collections
- By taxonomy - Lactobacillaceae
- By RNA motif - TPP
- By effector - Thiamine pyrophosphate
- By pathway - Thiamine biosynthesis
| Genome | Genes | Operons |
|---|---|---|
| Oenococcus oeni PSU-1 | 7 | 2 |
| Lactobacillus reuteri JCM 1112 | 7 | 3 |
| Lactobacillus helveticus DPC 4571 | ||
| Lactobacillus fermentum IFO 3956 | 8 | 3 |
| Lactobacillus salivarius subsp. salivarius UCC118 | 1 | 1 |
| Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 | 3 | 2 |
| Lactobacillus acidophilus NCFM | 1 | 1 |
| Lactobacillus johnsonii NCC 533 | 3 | 1 |
| Lactobacillus plantarum WCFS1 | 7 | 2 |
| Lactobacillus casei ATCC 334 | 9 | 2 |
| Lactobacillus brevis ATCC 367 | 7 | 2 |
| Lactobacillus sakei subsp. sakei 23K | 7 | 3 |
| Pediococcus pentosaceus ATCC 25745 | 8 | 3 |
| Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 | 23 | 8 |
| Lactobacillus rhamnosus GG | 9 | 2 |
| Genes | Function | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CRON 1. | ||||||||||||||||
| thiT |
|
|
|
|
*
Lactobacillus salivarius subsp. salivarius UCC118 Site: position = -175 score = 65.87 sequence = ACTAGCACAAGGGGA... Gene: LSL_1668: Core component YuaJ of predicted thiamin ECF transporter |
|
|
|
|
*
Lactobacillus casei ATCC 334 Site: position = -141 score = 61.38 sequence = AACCTTCACAAAGGG... Gene: LSEI_1757: Core component YuaJ of predicted thiamin ECF transporter |
|
*
Lactobacillus sakei subsp. sakei 23K Site: position = -146 score = 56.99 sequence = CCATCGCAAAGGGGA... Gene: LSA0968: Core component YuaJ of predicted thiamin ECF transporter |
|
|
*
Lactobacillus rhamnosus GG Site: position = -140 score = 57.51 sequence = AACCTTCACAAAGGG... Gene: LGG_01815: Core component YuaJ of predicted thiamin ECF transporter |
Core component YuaJ of predicted thiamin ECF transporter |
| CRON 2. | ||||||||||||||||
| LEUM_0981 |
|
|
|
|
|
|
|
|
|
|
|
|
|
*
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -176 score = 63.04 sequence = TAAATAACTAGGGGC... Gene: LEUM_0981: Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase related deacylase |
|
Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase related deacylase |
| LEUM_0982 |
|
|
|
|
|
|
|
|
|
|
|
|
|
Gene: LEUM_0982: hypothetical protein |
|
hypothetical protein |
| CRON 3. | ||||||||||||||||
| thiX |
|
|
|
|
|
|
|
|
|
|
|
|
*
Pediococcus pentosaceus ATCC 25745 Site: position = -465 score = 55.05 sequence = GATTTTGTAACAGGG... Gene: PEPE_0333: Hydroxymethylpyrimidine ABC transporter, transmembrane component |
|
|
Hydroxymethylpyrimidine ABC transporter, transmembrane component |
| thiY |
|
|
|
|
|
|
|
|
|
|
|
|
Gene: PEPE_0332: Hydroxymethylpyrimidine ABC transporter, substrate-binding component |
|
|
Hydroxymethylpyrimidine ABC transporter, substrate-binding component |
| thiZ |
|
|
|
|
|
|
|
|
|
|
|
|
Gene: PEPE_0331: Hydroxymethylpyrimidine ABC transporter, ATPase component |
|
|
Hydroxymethylpyrimidine ABC transporter, ATPase component |
| CRON 4. | ||||||||||||||||
| LEUM_1455 |
|
|
|
|
|
|
|
|
|
|
|
|
|
*
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -218 score = 64.75 sequence = ATTAACATACTAGGG... Gene: LEUM_1455: Nucleoside 2-deoxyribosyltransferase |
|
Nucleoside 2-deoxyribosyltransferase |
| LEUM_1454 |
|
|
|
|
|
|
|
|
|
|
|
|
|
Gene: LEUM_1454: Thymidylate synthase |
|
Thymidylate synthase |
| LEUM_1453 |
|
|
|
|
|
|
|
|
|
|
|
|
|
Gene: LEUM_1453: SAM-dependent methyltransferase |
|
SAM-dependent methyltransferase |
| CRON 5. | ||||||||||||||||
| ykoE |
*2
Oenococcus oeni PSU-1 Site: position = -151 score = 67.31 sequence = ATACTTCTATCTGGG... Gene: OEOE_0174: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Site: position = -251 score = 65.03 sequence = ACATCAAAATCTGGG... Gene: OEOE_1491: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus reuteri JCM 1112 Site: position = -156 score = 71.88 sequence = GAATAAATCTGGGGT... Gene: LAR_1550: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
*2
Lactobacillus fermentum IFO 3956 Site: position = -168 score = 57.74 sequence = TATCTTGTCTGGGGT... Gene: LAF_1705: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Site: position = -300 score = 74.27 sequence = CAGAATCTGTCTGGG... Gene: LAF_1533: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
*
Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 Site: position = -167 score = 60.93 sequence = AAAGCCACTAGGGGA... Gene: LBUL_0454: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus acidophilus NCFM Site: position = -140 score = 63.01 sequence = TAAGTCACTAGGGGT... Gene: LBA0576: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus johnsonii NCC 533 Site: position = -142 score = 59.39 sequence = GTAAATACATCTGGG... Gene: LJ0074: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus plantarum WCFS1 Site: position = -197 score = 58.06 sequence = TTCATAGCAACTGGG... Gene: lp_0219: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus casei ATCC 334 Site: position = -245 score = 68.22 sequence = AGAAACATTTGGGGT... Gene: LSEI_0294: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus brevis ATCC 367 Site: position = -180 score = 58.1 sequence = ACATATGACTGGGGT... Gene: LVIS_1827: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
|
*2
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -213 score = 60.46 sequence = AATATTTTATCTGGG... Gene: LEUM_1545: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Site: position = -409 score = 65.88 sequence = ACACCAAAATCTGGG... Gene: LEUM_0769: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
*
Lactobacillus rhamnosus GG Site: position = -289 score = 71.02 sequence = AGAAACATTTGGGGT... Gene: LGG_00363: Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Substrate-specific component YkoE of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
| ykoD |
2
Oenococcus oeni PSU-1 Gene: OEOE_0173: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Gene: OEOE_1489: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LAR_1551: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: lhv_0104: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LAF_1706: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
*
Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365 Site: position = -118 score = 37.82 sequence = GACGAATCAACGGGG... Gene: LBUL_0126: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LBA0094: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LJ0073: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: lp_0218: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LSEI_0295: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LVIS_1828: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
|
2
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_1544: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Gene: LEUM_0767: Duplicated ATPase component YkoD of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LGG_00364: 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 |
2
Oenococcus oeni PSU-1 Gene: OEOE_0172: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Gene: OEOE_1488: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LAR_1552: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: lhv_0103: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LAF_1707: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
Gene: LBUL_0125: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LBA0093: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LJ0072: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: lp_0217: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LSEI_0296: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LVIS_1829: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
|
|
2
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_1543: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine Gene: LEUM_0766: Transmembrane component YkoC of energizing module of thiamin-regulated ECF transporter for HydroxyMethylPyrimidine |
Gene: LGG_00365: 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 |
| tenA |
|
|
|
Gene: LAF_0359: Thiaminase II (EC 3.5.99.2) |
|
|
|
|
|
Gene: LSEI_0297: Thiaminase II (EC 3.5.99.2) |
Gene: LVIS_1830: Thiaminase II (EC 3.5.99.2) |
*
Lactobacillus sakei subsp. sakei 23K Site: position = -203 score = 60.89 sequence = AATAACGCATCTGGG... Gene: LSA1095: Thiaminase II (EC 3.5.99.2) |
Gene: PEPE_0561: Thiaminase II (EC 3.5.99.2) |
*
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -176 score = 79.24 sequence = CTGTCCACTAGGGGT... Gene: LEUM_1546: Thiaminase II (EC 3.5.99.2) |
Gene: LGG_00366: Thiaminase II (EC 3.5.99.2) |
Thiaminase II (EC 3.5.99.2) |
| thiW |
|
|
|
Gene: LAF_1532: Substrate-specific component ThiW of predicted thiazole ECF transporter |
|
|
|
|
|
Gene: LSEI_0298: Substrate-specific component ThiW of predicted thiazole ECF transporter |
Gene: LVIS_2201: Substrate-specific component ThiW of predicted thiazole ECF transporter |
Gene: LSA1094: Substrate-specific component ThiW of predicted thiazole ECF transporter |
|
Gene: LEUM_0937: Substrate-specific component ThiW of predicted thiazole ECF transporter |
Gene: LGG_00367: Substrate-specific component ThiW of predicted thiazole ECF transporter |
Substrate-specific component ThiW of predicted thiazole ECF transporter |
| thiM |
|
*
Lactobacillus reuteri JCM 1112 Site: position = -162 score = 54.26 sequence = TATTGCATTAGGGGT... Gene: LAR_0968: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
|
*
Lactobacillus fermentum IFO 3956 Site: position = -282 score = 61.95 sequence = TAATAGTTGCTAGGG... Gene: LAF_0803: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
|
|
|
|
*
Lactobacillus plantarum WCFS1 Site: position = -183 score = 67.44 sequence = TTAAACACTAGGGGT... Gene: lp_0113: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
Gene: LSEI_0299: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
*
Lactobacillus brevis ATCC 367 Site: position = -334 score = 64.26 sequence = ACCAAAACACTAGGG... Gene: LVIS_2099: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
*
Lactobacillus sakei subsp. sakei 23K Site: position = -178 score = 69.43 sequence = CGCTTTGCACTAGGG... Gene: LSA0059: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
*
Pediococcus pentosaceus ATCC 25745 Site: position = -185 score = 66.6 sequence = ATCTGCACTAGGGGT... Gene: PEPE_0558: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
*2
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Gene: LEUM_0938: Hydroxyethylthiazole kinase (EC 2.7.1.50) Site: position = -234 score = 60.02 sequence = ATAAATATCTGGGGT... Gene: LEUM_0485: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
Gene: LGG_00368: Hydroxyethylthiazole kinase (EC 2.7.1.50) |
Hydroxyethylthiazole kinase (EC 2.7.1.50) |
| thiE |
|
Gene: LAR_0970: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
|
Gene: LAF_0801: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
|
|
|
|
Gene: lp_0115: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: LSEI_0300: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: LVIS_2097: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: LSA0057: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: PEPE_0560: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
*2
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -223 score = 64.25 sequence = ATATGTATGTCTGGG... Gene: LEUM_1159: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) Gene: LEUM_0487: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: LGG_00369: Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
| thiD |
|
Gene: LAR_0969: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
|
Gene: LAF_0802: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
|
|
|
|
Gene: lp_0114: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Gene: LSEI_0301: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Gene: LVIS_2098: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Gene: LSA0058: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Gene: PEPE_0559: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Gene: LEUM_0486: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Gene: LGG_00370: Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
Phosphomethylpyrimidine kinase (EC 2.7.4.7) |
| LEUM_0933 |
|
|
|
|
|
|
|
|
|
|
|
|
|
*
Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 Site: position = -349 score = 65.35 sequence = GCTTGTGCTAGGGGC... Site: position = -177 score = 79.87 sequence = ATAATCACTAGGGGC... Gene: LEUM_0933: Xanthine/uracil permease |
|
Xanthine/uracil permease |
| LEUM_0934 |
|
|
|
|
|
|
|
|
|
|
|
|
|
Gene: LEUM_0934: Acyl-CoA synthetase (AMP-forming)/AMP-acid ligse II |
|
Acyl-CoA synthetase (AMP-forming)/AMP-acid ligse II |
| LEUM_0935 |
|
|
|
|
|
|
|
|
|
|
|
|
|
Gene: LEUM_0935: Acyl-CoA reductase (LuxC) |
|
Acyl-CoA reductase (LuxC) |
| LEUM_0936 |
|
|
|
|
|
|
|
|
|
|
|
|
|
Gene: LEUM_0936: 3-oxoacyl-acyl carrier protein reductase |
|
3-oxoacyl-acyl carrier protein reductase |
| cytX |
|
*
Lactobacillus reuteri JCM 1112 Site: position = -182 score = 59.27 sequence = TTGCATAAACGGGGA... Gene: LAR_1494: Predicted hydroxymethylpyrimidine transporter CytX |
|
|
|
|
|
|
Gene: lp_0116: Predicted hydroxymethylpyrimidine transporter CytX |
|
|
Gene: LSA0055: Predicted hydroxymethylpyrimidine transporter CytX |
|
|
|
Predicted hydroxymethylpyrimidine transporter CytX |
| LEUM_0768 |
Gene: OEOE_1490: hypothetical protein |
|
|
|
|
|
|
|
|
Gene: LSEI_0169: hypothetical protein |
|
|
*
Pediococcus pentosaceus ATCC 25745 Site: position = -206 score = 55.05 sequence = GATTTTGTAACAGGG... Gene: PEPE_0334: hypothetical protein |
Gene: LEUM_0768: hypothetical protein |
|
hypothetical protein |
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).
|
Regulated Genes | [ Tab delimited format ] | DOWNLOAD |
|
Regulatory Sites | [ FASTA format ] | DOWNLOAD |