Regulog TPP - Shewanellaceae
| Regulator type: | RNA regulatory element |
| Name: | TPP |
| RFAM: | RF00059 |
| Regulation mode: | |
| Biological process: | Thiamine biosynthesis |
| Effector: | Thiamine pyrophosphate |
| Phylum: | Proteobacteria |
Member of regulog collections
- By taxonomy - Shewanellaceae
- By RNA motif - TPP
- By effector - Thiamine pyrophosphate
- By pathway - Thiamine biosynthesis
| Genome | Genes | Operons |
|---|---|---|
| Shewanella amazonensis SB2B | 10 | 2 |
| Shewanella baltica OS155 | 4 | 1 |
| Shewanella denitrificans OS217 | 10 | 2 |
| Shewanella frigidimarina NCIMB 400 | 10 | 2 |
| Shewanella halifaxensis HAW-EB4 | 10 | 2 |
| Shewanella loihica PV-4 | 10 | 2 |
| Shewanella oneidensis MR-1 | 10 | 2 |
| Shewanella pealeana ATCC 700345 | 10 | 2 |
| Shewanella piezotolerans WP3 | 11 | 2 |
| Shewanella putrefaciens CN-32 | 10 | 2 |
| Shewanella sediminis HAW-EB3 | 10 | 2 |
| Shewanella sp ANA-3 | 10 | 2 |
| Shewanella sp MR-4 | 10 | 2 |
| Shewanella sp MR-7 | 10 | 2 |
| Shewanella sp W3-18-1 | 10 | 2 |
| Shewanella woodyi ATCC 51908 | 10 | 2 |
| Genes | Function | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CRON 1. | |||||||||||||||||
| thiC |
*
Shewanella amazonensis SB2B Site: position = -253 score = 70.97 sequence = CCAGCACTTGTCGGA... Gene: Sama_1860: Phosphomethylpyrimidine synthase |
Gene: Sbal_2022: Phosphomethylpyrimidine synthase |
*
Shewanella denitrificans OS217 Site: position = -384 score = 76.33 sequence = ACCTCTTGTCGGAGT... Gene: Sden_1770: Phosphomethylpyrimidine synthase |
*
Shewanella frigidimarina NCIMB 400 Site: position = -307 score = 75.11 sequence = TGACATCTTGTCGGA... Gene: Sfri_2201: Phosphomethylpyrimidine synthase |
*
Shewanella halifaxensis HAW-EB4 Site: position = -243 score = 71.55 sequence = TCATCTTGTCGGAGT... Gene: Shal_1900: Phosphomethylpyrimidine synthase |
*
Shewanella loihica PV-4 Site: position = -277 score = 68.05 sequence = GCCCCTCTTGTCGGA... Gene: Shew_2096: Phosphomethylpyrimidine synthase |
*
Shewanella oneidensis MR-1 Site: position = -261 score = 72.88 sequence = GGTCATCTTGTCGGA... Gene: SO_2445: Phosphomethylpyrimidine synthase |
*
Shewanella pealeana ATCC 700345 Site: position = -246 score = 70.97 sequence = GCTCATCTTGTCGGA... Gene: Spea_2383: Phosphomethylpyrimidine synthase |
*
Shewanella piezotolerans WP3 Site: position = -170 score = 72.89 sequence = TCATCTTGTCGGAGT... Gene: swp_2330: Phosphomethylpyrimidine synthase |
*
Shewanella putrefaciens CN-32 Site: position = -298 score = 72.71 sequence = TCATCTTGTCGGAGT... Gene: Sputcn32_1922: Phosphomethylpyrimidine synthase |
*
Shewanella sediminis HAW-EB3 Site: position = -298 score = 70.21 sequence = ACATCTTGTCGGAGT... Gene: Ssed_2013: Phosphomethylpyrimidine synthase |
*
Shewanella sp ANA-3 Site: position = -257 score = 72.55 sequence = CCATCTTGTCGGAGT... Gene: Shewana3_1936: Phosphomethylpyrimidine synthase |
*
Shewanella sp MR-4 Site: position = -256 score = 72.55 sequence = CCATCTTGTCGGAGT... Gene: Shewmr4_1881: Phosphomethylpyrimidine synthase |
*
Shewanella sp MR-7 Site: position = -258 score = 72.55 sequence = GCCCATCTTGTCGGA... Gene: Shewmr7_2097: Phosphomethylpyrimidine synthase |
*
Shewanella sp W3-18-1 Site: position = -300 score = 75.1 sequence = ACTCATCTTGTCGGA... Gene: Sputw3181_2086: Phosphomethylpyrimidine synthase |
*
Shewanella woodyi ATCC 51908 Site: position = -243 score = 76.33 sequence = TGGCATCTTGTCGGA... Gene: Swoo_2592: Phosphomethylpyrimidine synthase |
Phosphomethylpyrimidine synthase |
| thiDE |
Gene: Sama_1859: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Sbal_2023: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Sden_1771: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Sfri_2200: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Shal_1901: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Shew_2095: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: SO_2444: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Spea_2382: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: swp_2331: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Sputcn32_1923: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Ssed_2014: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Shewana3_1937: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Shewmr4_1882: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Shewmr7_2096: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Sputw3181_2085: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Gene: Swoo_2591: Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
Phosphomethylpyrimidine kinase (EC 2.7.4.7) / Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) |
| thiF |
Gene: Sama_1858: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Sbal_2024: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Sden_1772: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Sfri_2199: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Shal_1902: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Shew_2094: Sulfur carrier protein adenylyltransferase ThiF |
Gene: SO_2443: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Spea_2381: Sulfur carrier protein adenylyltransferase ThiF |
Gene: swp_2332: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Sputcn32_1924: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Ssed_2015: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Shewana3_1938: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Shewmr4_1883: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Shewmr7_2095: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Sputw3181_2084: Sulfur carrier protein adenylyltransferase ThiF |
Gene: Swoo_2590: Sulfur carrier protein adenylyltransferase ThiF |
Sulfur carrier protein adenylyltransferase ThiF |
| swp_2333 |
|
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Gene: swp_2333: hypothetical protein swp_2333 |
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hypothetical protein swp_2333 |
| thiS |
Gene: Sama_1857: Sulfur carrier protein ThiS |
Gene: Sbal_2025: Sulfur carrier protein ThiS |
Gene: Sden_1773: Sulfur carrier protein ThiS |
Gene: Sfri_2198: Sulfur carrier protein ThiS |
Gene: Shal_1903: Sulfur carrier protein ThiS |
Gene: Shew_2093: Sulfur carrier protein ThiS |
Gene: SO_2442: Sulfur carrier protein ThiS |
Gene: Spea_2380: Sulfur carrier protein ThiS |
Gene: swp_2334: Sulfur carrier protein ThiS |
Gene: Sputcn32_1925: Sulfur carrier protein ThiS |
Gene: Ssed_2016: Sulfur carrier protein ThiS |
Gene: Shewana3_1939: Sulfur carrier protein ThiS |
Gene: Shewmr4_1884: Sulfur carrier protein ThiS |
Gene: Shewmr7_2094: Sulfur carrier protein ThiS |
Gene: Sputw3181_2083: Sulfur carrier protein ThiS |
Gene: Swoo_2589: Sulfur carrier protein ThiS |
Sulfur carrier protein ThiS |
| thiG |
Gene: Sama_1856: Thiazole synthase |
Gene: Sbal_2026: Thiazole synthase |
Gene: Sden_1774: Thiazole synthase |
Gene: Sfri_2197: Thiazole synthase |
Gene: Shal_1904: Thiazole synthase |
Gene: Shew_2092: Thiazole synthase |
Gene: SO_2441: Thiazole synthase |
Gene: Spea_2379: Thiazole synthase |
Gene: swp_2335: Thiazole synthase |
Gene: Sputcn32_1926: Thiazole synthase |
Gene: Ssed_2017: Thiazole synthase |
Gene: Shewana3_1940: Thiazole synthase |
Gene: Shewmr4_1885: Thiazole synthase |
Gene: Shewmr7_2093: Thiazole synthase |
Gene: Sputw3181_2082: Thiazole synthase |
Gene: Swoo_2588: Thiazole synthase |
Thiazole synthase |
| thiH |
Gene: Sama_1855: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Sbal_2027: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Sden_1775: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Sfri_2196: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Shal_1905: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Shew_2091: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: SO_2440: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Spea_2378: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: swp_2336: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Sputcn32_1927: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Ssed_2018: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Shewana3_1941: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Shewmr4_1886: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Shewmr7_2092: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Sputw3181_2081: 2-iminoacetate synthase (EC 1.3.99.n2) |
Gene: Swoo_2587: 2-iminoacetate synthase (EC 1.3.99.n2) |
2-iminoacetate synthase (EC 1.3.99.n2) |
| CRON 2. | |||||||||||||||||
| omp_thi |
*
Shewanella amazonensis SB2B Site: position = -158 score = 68.99 sequence = GCGGCGCCAAGGGGT... Gene: Sama_1451: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella baltica OS155 Site: position = -179 score = 72.16 sequence = GCGTCGCCAAGGGGT... Gene: Sbal_1802: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella denitrificans OS217 Site: position = -164 score = 71.4 sequence = CCCTCGCGCCAAGGG... Gene: Sden_2321: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella frigidimarina NCIMB 400 Site: position = -164 score = 72.01 sequence = TGGCCGCCAAGGGGT... Gene: Sfri_1526: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella halifaxensis HAW-EB4 Site: position = -184 score = 66.42 sequence = CGCGCTCGCCAAGGG... Gene: Shal_2461: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella loihica PV-4 Site: position = -192 score = 69.39 sequence = GCCTCGCCAAGGGGT... Gene: Shew_1735: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella oneidensis MR-1 Site: position = -164 score = 67.63 sequence = AAGCGCCGCCAAGGG... Gene: SO_2715: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella pealeana ATCC 700345 Site: position = -182 score = 66.82 sequence = CGCTCGCCAAGGGGT... Gene: Spea_1828: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella piezotolerans WP3 Site: position = -183 score = 69.13 sequence = CGGCGGTGCCAAGGG... Gene: swp_2907: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella putrefaciens CN-32 Site: position = -181 score = 67.56 sequence = GCGCCGCCAAGGGGT... Gene: Sputcn32_1660: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella sediminis HAW-EB3 Site: position = -186 score = 67.53 sequence = TGCCGGCGCCAAGGG... Gene: Ssed_2752: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella sp ANA-3 Site: position = -165 score = 67.26 sequence = TAGCGCCGCCAAGGG... Gene: Shewana3_2500: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella sp MR-4 Site: position = -165 score = 67.26 sequence = TAGCGCCGCCAAGGG... Gene: Shewmr4_2310: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella sp MR-7 Site: position = -165 score = 67.26 sequence = TAGCGCCGCCAAGGG... Gene: Shewmr7_2380: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella sp W3-18-1 Site: position = -183 score = 67.56 sequence = AAGCGCCGCCAAGGG... Gene: Sputw3181_2365: predicted thiamin-specific outer membrane transporter, TonB-dependent |
*
Shewanella woodyi ATCC 51908 Site: position = -188 score = 70.5 sequence = CCGGCGCCAAGGGGT... Gene: Swoo_1886: predicted thiamin-specific outer membrane transporter, TonB-dependent |
predicted thiamin-specific outer membrane transporter, TonB-dependent |
| ykoF |
Gene: Sama_1452: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Sbal_1803: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Sden_2320: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Sfri_1527: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Shal_2460: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Shew_1736: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: SO_2714: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Spea_1829: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: swp_2906: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Sputcn32_1661: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Ssed_2751: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Shewana3_2499: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Shewmr4_2309: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Shewmr7_2379: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Sputw3181_2364: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Gene: Swoo_1887: Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
Thiamin/hydroxymethyl pyrimidine-binding YkoF, putative |
| pnuT |
Gene: Sama_1453: Predicted thiamin transporter PnuT |
Gene: Sbal_1804: Predicted thiamin transporter PnuT |
Gene: Sden_2319: Predicted thiamin transporter PnuT |
Gene: Sfri_1528: Predicted thiamin transporter PnuT |
Gene: Shal_2459: Predicted thiamin transporter PnuT |
Gene: Shew_1737: Predicted thiamin transporter PnuT |
Gene: SO_2713: Predicted thiamin transporter PnuT |
Gene: Spea_1830: Predicted thiamin transporter PnuT |
Gene: swp_2905: Predicted thiamin transporter PnuT |
Gene: Sputcn32_1662: Predicted thiamin transporter PnuT |
Gene: Ssed_2750: Predicted thiamin transporter PnuT |
Gene: Shewana3_2498: Predicted thiamin transporter PnuT |
Gene: Shewmr4_2308: Predicted thiamin transporter PnuT |
Gene: Shewmr7_2378: Predicted thiamin transporter PnuT |
Gene: Sputw3181_2363: Predicted thiamin transporter PnuT |
Gene: Swoo_1888: Predicted thiamin transporter PnuT |
Predicted thiamin transporter PnuT |
| thiK |
Gene: Sama_1454: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Sbal_1805: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Sden_2318: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Sfri_1529: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Shal_2458: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Shew_1738: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: SO_2712: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Spea_1831: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: swp_2904: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Sputcn32_1663: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Ssed_2749: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Shewana3_2497: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Shewmr4_2307: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Shewmr7_2377: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Sputw3181_2362: predicted thiamine kinase, aminoglycoside phosphotransferase family |
Gene: Swoo_1889: predicted thiamine kinase, aminoglycoside phosphotransferase family |
predicted thiamine kinase, aminoglycoside phosphotransferase family |
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 |