Regulog LiuR - Ralstonia
| Regulator type: | Transcription factor |
| Regulator family: | MerR |
| Regulation mode: | |
| Biological process: | Branched-chain amino acid degradation |
| Effector: | |
| Phylum: | Proteobacteria/beta |
| Visualization: | |
|
Allows to visualize regulog content in the context of metabolic pathways |
Member of regulog collections
- By trascription factor - LiuR
- By taxonomy - Ralstonia
- By TF family - MerR
- By pathway - Branched-chain amino acid degradation
| Genome | Genes | Operons |
|---|---|---|
| Ralstonia solanacearum GMI1000 | 12 | 6 |
| Ralstonia pickettii 12J | 12 | 6 |
| Ralstonia metallidurans CH34 | 17 | 5 |
| Ralstonia eutropha JMP134 | 16 | 4 |
| Ralstonia eutropha H16 | 20 | 5 |
| Cupriavidus taiwanensis | 20 | 5 |
| Genes | Function | ||||||
|---|---|---|---|---|---|---|---|
| CRON 1. | |||||||
| serA |
*
Ralstonia solanacearum GMI1000 Site: position = -34 score = 6.04197 sequence = CTTGACGTATACGTCAAC Gene: RS00697: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
*
Ralstonia pickettii 12J Site: position = -41 score = 5.66568 sequence = CTTGACGTATACGTCAAT Gene: Rpic_0115: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
Gene: Rmet_0118: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
Gene: Reut_A0152: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
Gene: H16_A0185: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
Gene: RALTA_A0128: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) |
| liuE |
Gene: RS00696: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: Rpic_0114: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: Rmet_0607: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: Reut_A0153: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: H16_A0186: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: RALTA_A0129: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
| dcp |
Gene: RS00695: Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
Gene: Rpic_0113: Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
Gene: Rmet_0119: Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
Gene: Reut_A0154: Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
Gene: H16_A0187: Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
Gene: RALTA_A0130: Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
Peptidyl-dipeptidase dcp (EC 3.4.15.5) |
| RSc0259 |
Gene: RS00694: Protein of unknown function DUF1289 |
Gene: Rpic_0112: Protein of unknown function DUF1289 |
Gene: Rmet_0120: Protein of unknown function DUF1289 |
Gene: Reut_A0156: Protein of unknown function DUF1289 |
Gene: H16_A0189: Protein of unknown function DUF1289 |
Gene: RALTA_A0132: Protein of unknown function DUF1289 |
Protein of unknown function DUF1289 |
| RSc0258 |
Gene: RS00693: Beta-lactamase domain protein |
Gene: Rpic_0111: Beta-lactamase domain protein |
Gene: Rmet_0121: Beta-lactamase domain protein |
Gene: Reut_A0157: Beta-lactamase domain protein |
Gene: H16_A0190: Beta-lactamase domain protein |
Gene: RALTA_A0133: Beta-lactamase domain protein |
Beta-lactamase domain protein |
| CRON 2. | |||||||
| mcm |
*
Ralstonia solanacearum GMI1000 Site: position = -113 score = 6.58437 sequence = GTTGACGTTTACGTAAAC Gene: RS00669: Methylmalonyl-CoA mutase (EC 5.4.99.2) |
*
Ralstonia pickettii 12J Site: position = -118 score = 4.8267 sequence = GTTGACGAGTGCGTCAAC Gene: Rpic_0089: Methylmalonyl-CoA mutase (EC 5.4.99.2) |
*
Ralstonia metallidurans CH34 Site: position = -98 score = 4.47423 sequence = GTTAACGTAAACGTCATA Site: position = -104 score = 5.73815 sequence = CCTTACGTTAACGTAAAC Gene: Rmet_0210: Methylmalonyl-CoA mutase (EC 5.4.99.2) |
Gene: Reut_A0253: Methylmalonyl-CoA mutase (EC 5.4.99.2) |
*
Ralstonia eutropha H16 Site: position = -133 score = 4.22532 sequence = GTTAACGTCAACGTCATA Site: position = -139 score = 6.00081 sequence = CTTTACGTTAACGTCAAC Gene: H16_A0280: Methylmalonyl-CoA mutase (EC 5.4.99.2) |
*
Cupriavidus taiwanensis Site: position = -136 score = 6.093 sequence = ATTTACGTTAACGTCAAC Site: position = -130 score = 4.22532 sequence = GTTAACGTCAACGTCATA Gene: RALTA_A0218: Methylmalonyl-CoA mutase (EC 5.4.99.2) |
Methylmalonyl-CoA mutase (EC 5.4.99.2) |
| hit |
Gene: RSp0494: Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
Gene: Rpic_4702: Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
Gene: Rmet_0211: Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
Gene: Reut_A0254: Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
Gene: H16_A0281: Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
Gene: RALTA_A0219: Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) |
| paaH1 |
Gene: RSc0244: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
Gene: Rpic_0090: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
Gene: Rmet_0212: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
Gene: Reut_A0255: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
Gene: H16_A0282: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
Gene: RALTA_A0220: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
| CRON 3. | |||||||
| RSc0281 |
*
Ralstonia solanacearum GMI1000 Site: position = -77 score = 6.28835 sequence = ATTGACGTTTACGTTAGC Site: position = -71 score = 4.87467 sequence = GTTTACGTTAGCGTCAAA Gene: RS03248: Metallo-beta-lactamase family protein |
*
Ralstonia pickettii 12J Site: position = -85 score = 5.07446 sequence = GTTTACGTTAGCGTCAAT Site: position = -91 score = 6.28835 sequence = ATTGACGTTTACGTTAGC Gene: Rpic_0131: Metallo-beta-lactamase family protein |
*
Ralstonia metallidurans CH34 Site: position = -50 score = 4.75469 sequence = GTTAACGTTAGCGTCAAG Site: position = -56 score = 6.24719 sequence = ATTGACGTTAACGTTAGC Gene: Rmet_0101: Metallo-beta-lactamase family protein |
*
Ralstonia eutropha JMP134 Site: position = -149 score = 5.45074 sequence = GTTTACGTTAGCGTCAAC Site: position = -155 score = 6.23303 sequence = GTTGACGTTTACGTTAGC Gene: Reut_A0132: Metallo-beta-lactamase family protein |
*
Ralstonia eutropha H16 Site: position = -130 score = 6.28835 sequence = ATTGACGTTTACGTTAGC Site: position = -124 score = 5.45074 sequence = GTTTACGTTAGCGTCAAC Gene: H16_A0164: Metallo-beta-lactamase family protein |
*
Cupriavidus taiwanensis Site: position = -132 score = 6.23303 sequence = GTTGACGTTTACGTTAGC Site: position = -126 score = 5.45074 sequence = GTTTACGTTAGCGTCAAC Gene: RALTA_A0107: Metallo-beta-lactamase family protein |
Metallo-beta-lactamase family protein |
| CRON 4. | |||||||
| liuR |
*
Ralstonia solanacearum GMI1000 Site: position = -101 score = 4.77323 sequence = GCTAACGTAAACGTCAAT Site: position = -107 score = 6.09005 sequence = TTTGACGCTAACGTAAAC Gene: RS03247: Transcriptional regulator, MerR family |
*
Ralstonia pickettii 12J Site: position = -111 score = 4.77323 sequence = GCTAACGTAAACGTCAAT Site: position = -117 score = 6.41819 sequence = ATTGACGCTAACGTAAAC Gene: Rpic_0130: Transcriptional regulator, MerR family |
*
Ralstonia metallidurans CH34 Site: position = -100 score = 6.18381 sequence = CTTGACGCTAACGTTAAC Site: position = -94 score = 5.08875 sequence = GCTAACGTTAACGTCAAT Gene: Rmet_0102: Transcriptional regulator, MerR family |
*
Ralstonia eutropha JMP134 Site: position = -99 score = 6.36287 sequence = GTTGACGCTAACGTAAAC Site: position = -93 score = 5.14952 sequence = GCTAACGTAAACGTCAAC Gene: Reut_A0133: Transcriptional regulator, MerR family |
*
Ralstonia eutropha H16 Site: position = -93 score = 4.77323 sequence = GCTAACGTAAACGTCAAT Site: position = -99 score = 6.36287 sequence = GTTGACGCTAACGTAAAC Gene: H16_A0165: Transcriptional regulator, MerR family |
*
Cupriavidus taiwanensis Site: position = -92 score = 5.14952 sequence = GCTAACGTAAACGTCAAC Site: position = -98 score = 6.36287 sequence = GTTGACGCTAACGTAAAC Gene: RALTA_A0108: Transcriptional regulator, MerR family |
Transcriptional regulator, MerR family |
| CRON 5. | |||||||
| paaI |
|
|
|
*
Ralstonia eutropha JMP134 Site: position = -52 score = 5.34588 sequence = GTTTACGTAAACGTCAAT Site: position = -58 score = 6.63969 sequence = ATTGACGTTTACGTAAAC Gene: Reut_A0134: Phenylacetic acid degradation-related protein |
*
Ralstonia eutropha H16 Site: position = -87 score = 5.34588 sequence = GTTTACGTAAACGTCAAT Site: position = -93 score = 6.63969 sequence = ATTGACGTTTACGTAAAC Gene: H16_A0166: Phenylacetic acid degradation-related protein |
*
Cupriavidus taiwanensis Site: position = -84 score = 5.53588 sequence = GTTTACGTAAACGTAAAT Site: position = -90 score = 6.63969 sequence = ATTGACGTTTACGTAAAC Gene: RALTA_A0109: Phenylacetic acid degradation-related protein |
Phenylacetic acid degradation-related protein |
| liuA |
*
Ralstonia solanacearum GMI1000 Site: position = -131 score = 5.34588 sequence = GTTTACGTAAACGTCAAT Site: position = -137 score = 6.58437 sequence = GTTGACGTTTACGTAAAC Gene: RS03246: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
*
Ralstonia pickettii 12J Site: position = -144 score = 5.34588 sequence = GTTTACGTAAACGTCAAT Site: position = -150 score = 6.63969 sequence = ATTGACGTTTACGTAAAC Gene: Rpic_0129: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
*
Ralstonia metallidurans CH34 Site: position = -81 score = 5.34588 sequence = GTTTACGTAAACGTCAAT Site: position = -87 score = 6.63969 sequence = ATTGACGTTTACGTAAAC Gene: Rmet_0103: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: Reut_A0135: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: H16_A0167: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: RALTA_A0110: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
| aceK |
Gene: RSc0278: Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
Gene: Rpic_0128: Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
Gene: Rmet_0104: Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
Gene: Reut_A0136: Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
Gene: H16_A0168: Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
Gene: RALTA_A0111: Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) |
| cah |
Gene: RS03244: Carbonic anhydrase (EC 4.2.1.1) |
Gene: Rpic_0127: Carbonic anhydrase (EC 4.2.1.1) |
Gene: Rmet_0105: Carbonic anhydrase (EC 4.2.1.1) |
Gene: Reut_A0137: Carbonic anhydrase (EC 4.2.1.1) |
Gene: H16_A0169: Carbonic anhydrase (EC 4.2.1.1) |
Gene: RALTA_A0112: Carbonic anhydrase (EC 4.2.1.1) |
Carbonic anhydrase (EC 4.2.1.1) |
| ivdA |
Gene: RSc0276: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: Rpic_0126: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: Rmet_0106: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: Reut_A0138: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: H16_A0170: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: RALTA_A0113: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
| Rmet_0107 |
Gene: RS03242: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Gene: Rpic_0125: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Gene: Rmet_0107: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Gene: Reut_A0139: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Gene: H16_A0171: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Gene: RALTA_A0114: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
| ivdC |
Gene: RS03241: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: Rpic_0124: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: Rmet_0108: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: Reut_A0140: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: H16_A0172: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Gene: RALTA_A0115: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Butyryl-CoA dehydrogenase (EC 1.3.99.2) |
| Rmet_0109 |
Gene: RS03240: 2-Hydroxychromene-2-carboxylate isomerase |
Gene: Rpic_0123: 2-Hydroxychromene-2-carboxylate isomerase |
Gene: Rmet_0109: 2-Hydroxychromene-2-carboxylate isomerase |
Gene: Reut_A0141: 2-Hydroxychromene-2-carboxylate isomerase |
Gene: H16_A0173: 2-Hydroxychromene-2-carboxylate isomerase |
Gene: RALTA_A0116: 2-Hydroxychromene-2-carboxylate isomerase |
2-Hydroxychromene-2-carboxylate isomerase |
| Rmet_0110 |
Gene: RS03238: Putative phosphatase YieH |
Gene: Rpic_0122: Putative phosphatase YieH |
Gene: Rmet_0110: Putative phosphatase YieH |
Gene: Reut_A0142: Putative phosphatase YieH |
Gene: H16_A0174: Putative phosphatase YieH |
Gene: RALTA_A0117: Putative phosphatase YieH |
Putative phosphatase YieH |
| Rmet_0111 |
Gene: RS03237: hypothetical protein |
Gene: Rpic_0121: hypothetical protein |
Gene: Rmet_0111: hypothetical protein |
Gene: Reut_A0143: hypothetical protein |
Gene: H16_A0175: hypothetical protein |
Gene: RALTA_A0118: hypothetical protein |
hypothetical protein |
| h16_A0176 |
|
|
|
Gene: Reut_A0144: Maleylacetoacetate isomerase (EC 5.2.1.2) / Glutathione S-transferase |
Gene: H16_A0176: Maleylacetoacetate isomerase (EC 5.2.1.2) / Glutathione S-transferase |
Gene: RALTA_A0119: Maleylacetoacetate isomerase (EC 5.2.1.2) / Glutathione S-transferase |
Maleylacetoacetate isomerase (EC 5.2.1.2) / Glutathione S-transferase |
| liuB |
Gene: RS03236: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
Gene: Rpic_0120: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
|
Gene: Reut_A0145: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
Gene: H16_A0177: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
Gene: RALTA_A0120: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
| Rmet_0112 |
Gene: RS03235: Dienelactone hydrolase or related enzyme |
Gene: Rpic_0119: Dienelactone hydrolase or related enzyme |
Gene: Rmet_0112: Dienelactone hydrolase or related enzyme |
Gene: Reut_A0146: Dienelactone hydrolase or related enzyme |
Gene: H16_A0178: Dienelactone hydrolase or related enzyme |
Gene: RALTA_A0121: Dienelactone hydrolase or related enzyme |
Dienelactone hydrolase or related enzyme |
| liuC |
Gene: RS03234: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
Gene: Rpic_0118: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
Gene: Rmet_0113: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
|
Gene: H16_A0179: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
Gene: RALTA_A0122: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
| CRON 6. | |||||||
| paaH |
*
Ralstonia solanacearum GMI1000 Site: position = -53 score = 5.23171 sequence = TATGACGTTGACGTAAAC Site: position = -47 score = 5.66139 sequence = GTTGACGTAAACGTCAAT Gene: RS05766: 3-hydroxyacyl-CoA dehydrogenase |
*
Ralstonia pickettii 12J Site: position = -50 score = 3.9865 sequence = GCGAACGTAAACGTCAAG Site: position = -56 score = 5.8905 sequence = CTTGACGCGAACGTAAAC Gene: Rpic_2811: 3-hydroxyacyl-CoA dehydrogenase |
*
Ralstonia metallidurans CH34 Site: position = -44 score = 6.59853 sequence = ATTGACGTTAACGTAAAC Gene: Rmet_0531: 3-hydroxyacyl-CoA dehydrogenase |
*
Ralstonia eutropha JMP134 Site: position = -56 score = 6.58437 sequence = GTTGACGTTTACGTAAAC Site: position = -50 score = 4.54979 sequence = GTTTACGTAAACGGCAGT Gene: Reut_A0589: 3-hydroxyacyl-CoA dehydrogenase |
*
Ralstonia eutropha H16 Site: position = -47 score = 5.13522 sequence = GTTTACGTAAACGGCAAC Site: position = -53 score = 6.63969 sequence = ATTGACGTTTACGTAAAC Gene: H16_A0602: 3-hydroxyacyl-CoA dehydrogenase |
*
Cupriavidus taiwanensis Site: position = -44 score = 6.112 sequence = CTTAACGTTTACGTAAAC Site: position = -38 score = 5.32523 sequence = GTTTACGTAAACGGAAAC Gene: RALTA_A0558: 3-hydroxyacyl-CoA dehydrogenase |
3-hydroxyacyl-CoA dehydrogenase |
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 |
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Regulatory Sites | [ FASTA format ] | DOWNLOAD |