Regulog UxuR2 - Comamonadaceae
| Regulator type: | Transcription factor |
| Regulator family: | GntR/Others |
| Regulation mode: | |
| Biological process: | Glucuronate utilization; Galacturonate utilization |
| 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 taxonomy - Comamonadaceae
- By TF family - GntR/Others
- By pathway - Glucuronate utilization
- By pathway - Galacturonate utilization
| Genome | Genes | Operons |
|---|---|---|
| Acidovorax avenae subsp. citrulli AAC00-1 | ||
| Acidovorax sp. JS42 | ||
| Comamonas testosteroni KF-1 | ||
| Delftia acidovorans SPH-1 | ||
| Leptothrix cholodnii SP-6 | ||
| Methylibium petroleiphilum PM1 | ||
| Polaromonas naphthalenivorans CJ2 | 9 | 2 |
| Polaromonas sp. JS666 | 18 | 4 |
| Rhodoferax ferrireducens DSM 15236 | ||
| Variovorax paradoxus S110 | 25 | 5 |
| Verminephrobacter eiseniae EF01-2 | 20 | 3 |
| Genes | Function | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CRON 1. | ||||||||||||
| uxuR2 |
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Polaromonas sp. JS666 Site: position = 30 score = 5.47591 sequence = CAATTGGCCTTACCACTTG Gene: Bpro_3963: Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
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Variovorax paradoxus S110 Site: position = -52 score = 5.04502 sequence = GAATTGGCCTTACCACTTG Gene: Vapar_0787: Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
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Verminephrobacter eiseniae EF01-2 Site: position = -62 score = 5.14886 sequence = GAATTGGCCTTACCAATTT Gene: Veis_1542: Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
| dctP |
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Gene: Bpro_3964: TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein |
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Gene: Vapar_0786: TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein |
2
Verminephrobacter eiseniae EF01-2 Gene: Veis_1541: TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein Gene: Veis_1540: TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein |
TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein |
| dctQ |
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Gene: Bpro_3965: TRAP-type C4-dicarboxylate transport system, small permease component |
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Gene: Vapar_0785: TRAP-type C4-dicarboxylate transport system, small permease component |
Gene: Veis_1539: TRAP-type C4-dicarboxylate transport system, small permease component |
TRAP-type C4-dicarboxylate transport system, small permease component |
| dctM |
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Gene: Bpro_3966: TRAP-type C4-dicarboxylate transport system, large permease component |
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Gene: Vapar_0784: TRAP-type C4-dicarboxylate transport system, large permease component |
Gene: Veis_1538: TRAP-type C4-dicarboxylate transport system, large permease component |
TRAP-type C4-dicarboxylate transport system, large permease component |
| uxaA |
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Gene: Bpro_3967: Altronate/Galactarate hydrolase (EC 4.2.1.7) |
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Gene: Vapar_0783: Altronate/Galactarate hydrolase (EC 4.2.1.7) |
Gene: Veis_1537: Altronate/Galactarate hydrolase (EC 4.2.1.7) |
Altronate/Galactarate hydrolase (EC 4.2.1.7) |
| CRON 2. | ||||||||||||
| COG4948 |
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Polaromonas sp. JS666 Site: position = -131 score = 5.47591 sequence = CAAGTGGTAAGGCCAATTG Gene: Bpro_3962: Muconate cycloisomerase (EC 5.5.1.1) |
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Gene: Vapar_5455: Muconate cycloisomerase (EC 5.5.1.1) |
Gene: Veis_2271: Muconate cycloisomerase (EC 5.5.1.1) |
Muconate cycloisomerase (EC 5.5.1.1) |
| Bpro_3961 |
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Gene: Bpro_3961: 2-keto-3-deoxy-L-fuconate dehydrogenase |
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Variovorax paradoxus S110 Site: position = -104 score = 5.04502 sequence = CAAGTGGTAAGGCCAATTC Gene: Vapar_0788: 2-keto-3-deoxy-L-fuconate dehydrogenase |
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2-keto-3-deoxy-L-fuconate dehydrogenase |
| Bpro_3960 |
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Gene: Bpro_3960: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
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Gene: Vapar_0789: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Gene: Veis_0638: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) |
| mhpD |
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Gene: Mpe_A0334: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (EC 5.3.3.-) / 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) |
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Gene: Bpro_3959: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (EC 5.3.3.-) / 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) |
Gene: Rfer_3133: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (EC 5.3.3.-) / 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) |
Gene: Vapar_0790: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (EC 5.3.3.-) / 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) |
Gene: Veis_1085: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (EC 5.3.3.-) / 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) |
2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (EC 5.3.3.-) / 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) |
| CRON 3. | ||||||||||||
| uxuR3 |
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Polaromonas sp. JS666 Site: position = -198 score = 3.99195 sequence = AGTTTGGTCTAACCAGCAA Gene: Bpro_3977: Predicted transcriptional regulator for glucuronate utilization, GntR family |
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Variovorax paradoxus S110 Site: position = -27 score = 5.15066 sequence = AATGTGGTCTAACCAATTT Gene: Vapar_2876: Predicted transcriptional regulator for glucuronate utilization, GntR family |
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Verminephrobacter eiseniae EF01-2 Site: position = -25 score = 5.3235 sequence = TAATTGGTCTATCCAATTT Gene: Veis_3567: Predicted transcriptional regulator for glucuronate utilization, GntR family |
Predicted transcriptional regulator for glucuronate utilization, GntR family |
| Aave_2470 |
Gene: Aave_2470: Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC 4.2.1.91) # Periplasmic precursor |
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Gene: Bpro_4214: Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC 4.2.1.91) # Periplasmic precursor |
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2
Variovorax paradoxus S110 Gene: Vapar_4767: Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC 4.2.1.91) # Periplasmic precursor Gene: Vapar_2877: Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC 4.2.1.91) # Periplasmic precursor |
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Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC 4.2.1.91) # Periplasmic precursor |
| Vapar_2878 |
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Gene: Vapar_2878: Amino acid ABC transporter, periplasmic amino acid-binding protein |
Gene: Veis_3566: Amino acid ABC transporter, periplasmic amino acid-binding protein |
Amino acid ABC transporter, periplasmic amino acid-binding protein |
| idnD/tdh |
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Gene: Vapar_2879: L-idonate 5-dehydrogenase (EC 1.1.1.264) |
Gene: Veis_3565: L-idonate 5-dehydrogenase (EC 1.1.1.264) |
L-idonate 5-dehydrogenase (EC 1.1.1.264) |
| Vapar_2880 |
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Gene: Vapar_2880: Amino acid ABC transporter, inner membrane subunit |
Gene: Veis_3564: Amino acid ABC transporter, inner membrane subunit |
Amino acid ABC transporter, inner membrane subunit |
| Vapar_2881 |
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Gene: Vapar_2881: Amino acid ABC transporter, inner membrane subunit |
Gene: Veis_3563: Amino acid ABC transporter, inner membrane subunit |
Amino acid ABC transporter, inner membrane subunit |
| Vapar_2882 |
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Gene: Vapar_2882: Amino acid transport ATP-binding protein GlnQ (TC 3.A.1.3.2) |
Gene: Veis_3562: Amino acid transport ATP-binding protein GlnQ (TC 3.A.1.3.2) |
Amino acid transport ATP-binding protein GlnQ (TC 3.A.1.3.2) |
| Bpro_3978 |
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Gene: Bpro_3978: Mandelate racemase/muconate lactonizing enzyme, C-terminal domain protein |
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Gene: Vapar_2883: Mandelate racemase/muconate lactonizing enzyme, C-terminal domain protein |
Gene: Veis_3561: Mandelate racemase/muconate lactonizing enzyme, C-terminal domain protein |
Mandelate racemase/muconate lactonizing enzyme, C-terminal domain protein |
| mtlD |
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Gene: Vapar_2884: D-mannonate oxidoreductase (EC 1.1.1.57) |
Gene: Veis_3560: D-mannonate oxidoreductase (EC 1.1.1.57) |
D-mannonate oxidoreductase (EC 1.1.1.57) |
| Pnap_1486 |
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Polaromonas naphthalenivorans CJ2 Gene: Pnap_2067: 2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) Gene: Pnap_1486: 2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) |
Gene: Bpro_1737: 2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) |
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Gene: Vapar_3414: 2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) |
Gene: Veis_3559: 2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) |
2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) |
| Pnap_2074 |
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Polaromonas naphthalenivorans CJ2 Site: position = -262 score = 4.93394 sequence = TATTTGGTCAGGCCACATT Site: position = -248 score = 4.30115 sequence = ACATTGGCCTGACCGAAAG Site: position = -107 score = 3.906 sequence = TATACGGTAAGGCCAATCT Site: position = -75 score = 5.08167 sequence = AAATTGGCCTTACCAAATA Gene: Pnap_2074: polar amino acid ABC transporter, inner membrane subunit |
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polar amino acid ABC transporter, inner membrane subunit |
| Pnap_2073 |
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Gene: Pnap_2073: polar amino acid ABC transporter, inner membrane subunit |
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polar amino acid ABC transporter, inner membrane subunit |
| Pnap_2072 |
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Gene: Pnap_2072: ABC transporter related |
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ABC transporter related |
| Pnap_2071 |
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Gene: Pnap_2071: extracellular solute-binding protein, family 3 |
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extracellular solute-binding protein, family 3 |
| Pnap_2070 |
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Gene: Pnap_2070: Alcohol dehydrogenase GroES domain protein |
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Alcohol dehydrogenase GroES domain protein |
| mtlD2 |
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Gene: Pnap_2069: Mannitol dehydrogenase, C-terminal domain |
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Mannitol dehydrogenase, C-terminal domain |
| uxaA |
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Gene: Pnap_2068: Altronate dehydratase |
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Altronate dehydratase |
| CRON 4. | ||||||||||||
| uxuR2-2 |
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Polaromonas naphthalenivorans CJ2 Site: position = -188 score = 5.08167 sequence = TATTTGGTAAGGCCAATTT Site: position = -156 score = 3.906 sequence = AGATTGGCCTTACCGTATA Site: position = -15 score = 4.30115 sequence = CTTTCGGTCAGGCCAATGT Site: position = -1 score = 4.93394 sequence = AATGTGGCCTGACCAAATA Gene: Pnap_2075: Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
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Variovorax paradoxus S110 Site: position = -165 score = 5.05008 sequence = CTTTTGGCCTTACCAATTT Site: position = -151 score = 4.69657 sequence = AATTTGGCGAGGCCACTTT Site: position = -36 score = 4.6616 sequence = AAACTGGCATGACCAGATC Gene: Vapar_5316: Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
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Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
| CRON 5. | ||||||||||||
| Vapar_5317 |
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Variovorax paradoxus S110 Site: position = -157 score = 4.6616 sequence = GATCTGGTCATGCCAGTTT Site: position = -42 score = 4.69657 sequence = AAAGTGGCCTCGCCAAATT Site: position = -28 score = 5.05008 sequence = AAATTGGTAAGGCCAAAAG Gene: Vapar_5317: amidohydrolase 2 |
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amidohydrolase 2 |
| Rfer_3129 |
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Gene: Rfer_3129: ABC-type sugar transport system, ATP-binding protein (EC 3.6.3.17) |
Gene: Vapar_5318: ABC-type sugar transport system, ATP-binding protein (EC 3.6.3.17) |
Gene: Veis_1088: ABC-type sugar transport system, ATP-binding protein (EC 3.6.3.17) |
ABC-type sugar transport system, ATP-binding protein (EC 3.6.3.17) |
| Rfer_3130 |
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Gene: Rfer_3130: Possible fucose ABC transporter, permease component |
Gene: Vapar_5319: Possible fucose ABC transporter, permease component |
Gene: Veis_1087: Possible fucose ABC transporter, permease component |
Possible fucose ABC transporter, permease component |
| Rfer_3131 |
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Gene: Rfer_3131: Possible fucose ABC transporter, substrate-binding component |
Gene: Vapar_5320: Possible fucose ABC transporter, substrate-binding component |
Gene: Veis_1086: Possible fucose ABC transporter, substrate-binding component |
Possible fucose ABC transporter, substrate-binding component |
| Rfer_3134 |
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Gene: Rfer_3134: L-fuconate dehydratase (EC 4.2.1.68) |
Gene: Vapar_5321: L-fuconate dehydratase (EC 4.2.1.68) |
Gene: Veis_1084: L-fuconate dehydratase (EC 4.2.1.68) |
L-fuconate dehydratase (EC 4.2.1.68) |
| Rfer_3136 |
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Gene: Rfer_3136: SDR dehydrogenase clustered with L-fuconate utilization genes |
Gene: Vapar_5322: SDR dehydrogenase clustered with L-fuconate utilization genes |
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SDR dehydrogenase clustered with L-fuconate utilization genes |
| Rfer_3138 |
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Gene: Rfer_3138: Possible alternative L-fucose mutarotase |
Gene: Vapar_5323: Possible alternative L-fucose mutarotase |
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Possible alternative L-fucose mutarotase |
| CRON 6. | ||||||||||||
| uxuR2-3 |
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Verminephrobacter eiseniae EF01-2 Site: position = -38 score = 4.86503 sequence = CGATTGGCCTGACCATTGA Gene: Veis_0743: Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
Predicted transcriptional regulator for glucuronate/galacturonate utilization, GntR family |
| argE |
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Gene: Bpro_0411: Acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (EC 3.5.1.16) |
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Gene: Vapar_3755: Acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (EC 3.5.1.16) |
Gene: Veis_0744: Acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (EC 3.5.1.16) |
Acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (EC 3.5.1.16) |
| ddpA |
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Gene: Veis_0745: Oligopeptide ABC transporter, periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1) |
Oligopeptide ABC transporter, periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1) |
| dppB |
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Gene: Veis_0746: Putative polyamine transporter; Oligopeptide transport system permease protein OppB (TC 3.A.1.5.1) |
Putative polyamine transporter; Oligopeptide transport system permease protein OppB (TC 3.A.1.5.1) |
| dppC |
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Gene: Veis_0747: Putative polyamine transporter; Oligopeptide transport system permease protein OppC (TC 3.A.1.5.1) |
Putative polyamine transporter; Oligopeptide transport system permease protein OppC (TC 3.A.1.5.1) |
| CRON 7. | ||||||||||||
| Bpro_3976 |
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Polaromonas sp. JS666 Site: position = -161 score = 3.99195 sequence = TTGCTGGTTAGACCAAACT Gene: Bpro_3976: ABC transporter amino acid-binding protein |
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ABC transporter amino acid-binding protein |
| Bpro_3975 |
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Gene: Bpro_3975: amino acid ABC transporter, permease protein |
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amino acid ABC transporter, permease protein |
| Bpro_3974 |
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Gene: Bpro_3974: amino acid ABC transporter, permease protein |
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amino acid ABC transporter, permease protein |
| Bpro_3973 |
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Gene: Bpro_3973: Glutamine transport ATP-binding protein glnQ |
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Glutamine transport ATP-binding protein glnQ |
| COG2055 |
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Gene: Bpro_3972: Malate dehydrogenase (EC 1.1.1.37) |
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Gene: Vapar_2575: Malate dehydrogenase (EC 1.1.1.37) |
Gene: Veis_4538: Malate dehydrogenase (EC 1.1.1.37) |
Malate dehydrogenase (EC 1.1.1.37) |
| COG2706 |
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Gene: Pnap_1490: 3-carboxymuconate cyclase |
Gene: Bpro_3971: 3-carboxymuconate cyclase |
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Gene: Vapar_3646: 3-carboxymuconate cyclase |
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3-carboxymuconate cyclase |
| uxuA |
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Gene: Bpro_3970: D-mannonate oxidoreductase (EC 1.1.1.57) |
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D-mannonate oxidoreductase (EC 1.1.1.57) |
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 |