Regulog LiuR - Various betaproteobacteria
| Regulator type: | Transcription factor |
| Regulator family: | MerR |
| Regulation mode: | repressor |
| Biological process: | Branched-chain amino acid degradation |
| Effector: | |
| Phylum: | Proteobacteria/beta |
| Visualization: | |
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Allows to visualize regulog content in the context of metabolic pathways |
Member of regulog collections
- By trascription factor - LiuR
- By taxonomy - Various betaproteobacteria
- By TF family - MerR
- By pathway - Branched-chain amino acid degradation
| Genome | Genes | Operons |
|---|---|---|
| Azoarcus sp. EbN1 | 2 | 2 |
| Thauera sp. MZ1T | 18 | 6 |
| Dechloromonas aromatica RCB | 16 | 1 |
| Nitrosomonas europaea ATCC 19718 | ||
| Nitrosospira multiformis ATCC 25196 | ||
| Thiobacillus denitrificans | ||
| Chromobacterium violaceum ATCC 12472 | 21 | 6 |
| Neisseria meningitidis MC58 | ||
| Laribacter hongkongensis HLHK9 | 17 | 4 |
| Methylobacillus flagellatus KT | ||
| Methylotenera mobilis JLW8 | ||
| Methylophilales bacterium HTCC2181 |
| Genes | Function | ||||||||||||
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| CRON 1. | |||||||||||||
| Tmz1t_2954 |
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Thauera sp. MZ1T Site: position = -33 score = 5.92737 sequence = GTTGACGCGAACGTAAAC Site: position = -153 score = 5.48106 sequence = GTTGACGCAAACGTCAAT Site: position = -159 score = 5.18368 sequence = GTTTACGTTGACGCAAAC Gene: Tmz1t_2954: 6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase |
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6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase |
| badI |
Gene: ebA1954: 2-ketocyclohexanecarboxyl-CoA hydrolase (EC 4.1.3.36) |
Gene: Tmz1t_2953: 2-ketocyclohexanecarboxyl-CoA hydrolase (EC 4.1.3.36) |
Gene: Daro_1616: 2-ketocyclohexanecarboxyl-CoA hydrolase (EC 4.1.3.36) |
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2-ketocyclohexanecarboxyl-CoA hydrolase (EC 4.1.3.36) |
| Tmz1t_2952 |
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Gene: Tmz1t_2952: cyclohexa-1,5-dienecarbonyl-CoA hydratase |
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cyclohexa-1,5-dienecarbonyl-CoA hydratase |
| Tmz1t_2951 |
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Gene: Tmz1t_2951: benzoyl-CoA reductase, subunit C |
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benzoyl-CoA reductase, subunit C |
| Tmz1t_2950 |
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Gene: Tmz1t_2950: benzoyl-CoA reductase, subunit B |
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benzoyl-CoA reductase, subunit B |
| Tmz1t_2949 |
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Gene: Tmz1t_2949: benzoyl-CoA reductase, subunit A |
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benzoyl-CoA reductase, subunit A |
| Tmz1t_2948 |
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Gene: Tmz1t_2948: benzoyl-CoA reductase, subunit D |
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benzoyl-CoA reductase, subunit D |
| Tmz1t_2947 |
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Gene: Tmz1t_2947: 4Fe-4S ferredoxin iron-sulfur binding domain protein |
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4Fe-4S ferredoxin iron-sulfur binding domain protein |
| Tmz1t_2946 |
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Gene: Tmz1t_2946: GCN5-related N-acetyltransferase |
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GCN5-related N-acetyltransferase |
| Tmz1t_2945 |
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Gene: Tmz1t_2945: GCN5-related N-acetyltransferase |
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GCN5-related N-acetyltransferase |
| CRON 2. | |||||||||||||
| lcfA |
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Gene: Tmz1t_3365: Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
Gene: Daro_0249: Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
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Laribacter hongkongensis HLHK9 Site: position = -62 score = 5.39433 sequence = GTTTACGTTCACGTAAAT Gene: LHK_00209: Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
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Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
| livG |
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Gene: Tmz1t_3364: Branched-chain amino acid ABC transport system, ATP-binding protein LivG |
Gene: Daro_0250: Branched-chain amino acid ABC transport system, ATP-binding protein LivG |
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Gene: LHK_00210: Branched-chain amino acid ABC transport system, ATP-binding protein LivG |
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Branched-chain amino acid ABC transport system, ATP-binding protein LivG |
| livH |
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Gene: Tmz1t_3363: Branched-chain amino acid ABC transport system, permease protein LivH |
Gene: Daro_0251: Branched-chain amino acid ABC transport system, permease protein LivH |
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Gene: LHK_00211: Branched-chain amino acid ABC transport system, permease protein LivH |
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Branched-chain amino acid ABC transport system, permease protein LivH |
| livM |
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Gene: Tmz1t_3362: Branched-chain amino acid ABC transport system, permease protein LivM |
Gene: Daro_0252: Branched-chain amino acid ABC transport system, permease protein LivM |
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Gene: LHK_00212: Branched-chain amino acid ABC transport system, permease protein LivM |
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Branched-chain amino acid ABC transport system, permease protein LivM |
| livK |
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Gene: Daro_0253: Branched-chain amino acid ABC transport system, substrate-binding protein LivK |
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Gene: LHK_00213: Branched-chain amino acid ABC transport system, substrate-binding protein LivK |
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Branched-chain amino acid ABC transport system, substrate-binding protein LivK |
| livF |
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Gene: Tmz1t_3360: Branched-chain amino acid ABC transport system, ATP-binding protein LivF |
Gene: Daro_0254: Branched-chain amino acid ABC transport system, ATP-binding protein LivF |
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Gene: LHK_00214: Branched-chain amino acid ABC transport system, ATP-binding protein LivF |
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Branched-chain amino acid ABC transport system, ATP-binding protein LivF |
| paaK |
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Gene: Tmz1t_3359: Putative phenylacetate-CoA ligase |
Gene: Daro_0255: Putative phenylacetate-CoA ligase |
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Gene: LHK_00215: Putative phenylacetate-CoA ligase |
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Putative phenylacetate-CoA ligase |
| ivdB |
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Gene: CV2085: Methylmalonate-semialdehyde dehydrogenase (EC 1.2.1.27) |
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Gene: LHK_00216: Methylmalonate-semialdehyde dehydrogenase (EC 1.2.1.27) |
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Methylmalonate-semialdehyde dehydrogenase (EC 1.2.1.27) |
| ivdC |
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Gene: CV2084: Branched-chain acyl-CoA dehydrogenase (EC 1.3.99.12) |
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Gene: LHK_00217: Branched-chain acyl-CoA dehydrogenase (EC 1.3.99.12) |
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Branched-chain acyl-CoA dehydrogenase (EC 1.3.99.12) |
| ivdE |
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Gene: CV2083: Enoyl-CoA hydratase [valine degradation] (EC 4.2.1.17) |
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Gene: LHK_00218: Enoyl-CoA hydratase [valine degradation] (EC 4.2.1.17) |
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Enoyl-CoA hydratase [valine degradation] (EC 4.2.1.17) |
| ivdD |
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Gene: CV2082: 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) |
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Gene: LHK_00219: 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) |
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3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) |
| ivdF |
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Gene: CV2081: 3-hydroxyisobutyrate dehydrogenase (EC 1.1.1.31) |
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Gene: LHK_00220: 3-hydroxyisobutyrate dehydrogenase (EC 1.1.1.31) |
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3-hydroxyisobutyrate dehydrogenase (EC 1.1.1.31) |
| ivdG |
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Chromobacterium violaceum ATCC 12472 Site: position = -60 score = 5.46161 sequence = GTTGACGTAAACGTCAAG Site: position = -66 score = 6.08613 sequence = GTTGACGTTGACGTAAAC Gene: CV2086: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
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Laribacter hongkongensis HLHK9 Site: position = -54 score = 4.82897 sequence = GTTAACGTAAACGTATAT Site: position = -60 score = 6.59853 sequence = ATTGACGTTAACGTAAAC Gene: LHK_00208: 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
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3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) |
| CRON 3. | |||||||||||||
| CV0303 |
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Chromobacterium violaceum ATCC 12472 Site: position = -262 score = 6.22769 sequence = GTTGACGTAAACGTAAAC Site: position = -268 score = 5.81331 sequence = TTTGACGTTGACGTAAAC Gene: CV0303: Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits |
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Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits |
| CV0302 |
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Gene: CV0302: hypothetical protein |
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hypothetical protein |
| CRON 4. | |||||||||||||
| aacS2 |
Gene: ebA4661: Acetoacetyl-CoA synthetase (EC 6.2.1.16) / Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
Gene: Tmz1t_0752: Acetoacetyl-CoA synthetase (EC 6.2.1.16) / Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
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Chromobacterium violaceum ATCC 12472 Site: position = -54 score = 5.77229 sequence = ATTTACGTTTACGTAATC Site: position = -48 score = 4.75894 sequence = GTTTACGTAATCGTCAAT Gene: CV1780: Acetoacetyl-CoA synthetase (EC 6.2.1.16) / Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
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Acetoacetyl-CoA synthetase (EC 6.2.1.16) / Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) |
| CRON 5. | |||||||||||||
| paaH |
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Azoarcus sp. EbN1 Site: position = -78 score = 5.89612 sequence = GTTGACGTTGACGTCAAC Gene: ebA5126: Short-chain dehydrogenase/reductase SDR |
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Thauera sp. MZ1T Site: position = -84 score = 5.70491 sequence = ATTGACGCCTACGTCAAC Gene: Tmz1t_1274: Short-chain dehydrogenase/reductase SDR |
Gene: Daro_0710: Short-chain dehydrogenase/reductase SDR |
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Short-chain dehydrogenase/reductase SDR |
| CRON 6. | |||||||||||||
| paaI |
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Thauera sp. MZ1T Site: position = -59 score = 5.5039 sequence = GATTACGTTAACGTTAAC Gene: Tmz1t_0730: Phenylacetic acid degradation-related protein |
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Dechloromonas aromatica RCB Site: position = -45 score = 5.4159 sequence = GTTAACGTAAACGTAAAT Site: position = -51 score = 6.54321 sequence = GTTGACGTTAACGTAAAC Gene: Daro_0101: Phenylacetic acid degradation-related protein |
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Phenylacetic acid degradation-related protein |
| liuA |
Gene: ebA4656: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) |
Gene: Tmz1t_0748: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) |
Gene: Daro_0100: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) |
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Chromobacterium violaceum ATCC 12472 Site: position = -80 score = 6.45935 sequence = ATTGACGCTTACGTAAAC Site: position = -74 score = 5.25036 sequence = GCTTACGTAAACGTAAGC Gene: CV1766: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) |
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Laribacter hongkongensis HLHK9 Site: position = -80 score = 6.08613 sequence = GTTGACGTTCACGTAAAC Gene: LHK_02055: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) |
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Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) |
| cah |
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Gene: Tmz1t_0731: Carbonic anhydrase (EC 4.2.1.1) |
Gene: Daro_0099: Carbonic anhydrase (EC 4.2.1.1) |
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Carbonic anhydrase (EC 4.2.1.1) |
| ivdA |
Gene: ebA3639: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: Tmz1t_0732: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
Gene: Daro_0098: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
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Gene: CV2088: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
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Laribacter hongkongensis HLHK9 Site: position = -33 score = 5.10584 sequence = GTTTCCGTTTACGTAAAA Gene: LHK_00206: Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
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Acetyl-CoA C-acyltransferase (EC 2.3.1.16) |
| Daro_0097 |
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Gene: Daro_0097: Permease of the drug/metabolite transporter (DMT) superfamily |
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Permease of the drug/metabolite transporter (DMT) superfamily |
| ivdC |
Gene: ebA3640: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2) |
Gene: Tmz1t_0733: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2) |
Gene: Daro_0096: Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2) |
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Isovaleryl-CoA dehydrogenase (EC 1.3.99.10); Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2) |
| Daro_0095 |
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Gene: Daro_0095: Protein of unknown function DUF88 |
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Protein of unknown function DUF88 |
| Daro_0094 |
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Gene: Daro_0094: 2-hydroxychromene-2-carboxylate isomerase |
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2-hydroxychromene-2-carboxylate isomerase |
| Daro_0093 |
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Gene: Daro_0093: Lysine decarboxylase family |
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Lysine decarboxylase family |
| liuB |
Gene: ebA4657: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
Gene: Tmz1t_0749: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
Gene: Daro_0092: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
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Gene: CV1764: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
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Gene: LHK_02056: Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
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Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) |
| Daro_0091 |
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Gene: Daro_0091: Transcriptional regulator |
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Transcriptional regulator |
| liuC |
Gene: ebA3642: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
Gene: Tmz1t_0750: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
Gene: Daro_0090: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
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Gene: CV1763: Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
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Methylglutaconyl-CoA hydratase (EC 4.2.1.18) |
| liuD |
Gene: ebA4659: Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) |
Gene: Tmz1t_0751: Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) |
Gene: Daro_0089: Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) |
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Gene: CV1762: Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) |
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Gene: LHK_02057: Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) |
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Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) |
| Daro_0088 |
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Gene: Daro_0088: 5-enolpyruvylshikimate-3-phosphate synthase |
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5-enolpyruvylshikimate-3-phosphate synthase |
| fabG |
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Gene: Tmz1t_2236: 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) |
Gene: Daro_0087: 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) |
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3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) |
| liuE |
Gene: ebA4662: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: Tmz1t_0753: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
Gene: Daro_0086: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
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Gene: CV1759: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
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Gene: LHK_02058: Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
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Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) |
| CV1765 |
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Gene: CV1765: hypothetical protein |
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hypothetical protein |
| CV1761 |
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Gene: CV1761: FOG: TPR repeat protein |
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FOG: TPR repeat protein |
| CV1760 |
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Gene: CV1760: probable transcriptional regulator (AraC/XylS family) |
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probable transcriptional regulator (AraC/XylS family) |
| aacS |
Gene: ebA4666: Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16) |
Gene: Tmz1t_1658: Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16) |
Gene: Daro_0177: Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16) |
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Gene: CV1758: Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16) |
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Gene: LHK_02059: Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16) |
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Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16) |
| liuR |
Gene: ebA3634: Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family |
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Thauera sp. MZ1T Site: position = -135 score = 6.23303 sequence = GTTGACGTTTACGTTAGC Gene: Tmz1t_2996: Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family |
Gene: Daro_0102: Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family |
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*2
Chromobacterium violaceum ATCC 12472 Site: position = -87 score = 5.47325 sequence = GTTTACGTCAACGTCAAC Site: position = -93 score = 6.35749 sequence = CTTGACGTTTACGTCAAC Gene: CV2087: Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family Site: position = -75 score = 4.95429 sequence = GATTACGTAAACGTAAAT Site: position = -81 score = 6.09447 sequence = ATTGACGATTACGTAAAC Gene: CV1779: Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family |
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Laribacter hongkongensis HLHK9 Site: position = -116 score = 5.59504 sequence = ATATACGTTTACGTTAAC Site: position = -110 score = 5.66139 sequence = GTTTACGTTAACGTCAAT Gene: LHK_00207: Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family |
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Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family |
| CRON 7. | |||||||||||||
| ebA6516 |
Gene: ebA6516: Enoyl-CoA hydratase (EC 4.2.1.17) |
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Thauera sp. MZ1T Site: position = -66 score = 5.2622 sequence = GTTGACGTTAACGTTGCC Gene: Tmz1t_2272: Enoyl-CoA hydratase (EC 4.2.1.17) |
Gene: Daro_0558: Enoyl-CoA hydratase (EC 4.2.1.17) |
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Enoyl-CoA hydratase (EC 4.2.1.17) |
| CRON 8. | |||||||||||||
| acsA |
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Azoarcus sp. EbN1 Site: position = -202 score = 5.27766 sequence = CATGACGTTGACGTCAAC Gene: ebA1206: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases |
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Thauera sp. MZ1T Site: position = -84 score = 4.96721 sequence = GTTAACGTCAACGTAAAA Gene: Tmz1t_1162: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases |
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Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases |
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 |