Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Regulog MdcY - Comamonadaceae

Properties
Regulator type: Transcription factor
Regulator family: GntR/Others
Regulation mode:
Biological process: Malonate metabolism
Effector:
Phylum: Proteobacteria/Beta
Visualization:
Allows to visualize regulog content in the context of metabolic pathways
Built upon 8 sites [see more]
Member of regulog collections
Statistics of regulated genes
Genome Genes Operons
Acidovorax avenae subsp. citrulli AAC00-1
Acidovorax sp. JS42
Comamonas testosteroni KF-1
Delftia acidovorans SPH-1
Leptothrix cholodnii SP-6 9 2
Methylibium petroleiphilum PM1 9 2
Polaromonas naphthalenivorans CJ2
Polaromonas sp. JS666
Rhodoferax ferrireducens DSM 15236 11 2
Variovorax paradoxus S110
Verminephrobacter eiseniae EF01-2
Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes Function
 
CRON 1.
matP
 
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
 
Polaromonas sp. JS666
*
Rhodoferax ferrireducens DSM 15236

Site:
position = -160
score = 3.80786
sequence = TGGTATGCAA

Site:
position = -95
score = 4.60648
sequence = ATGTATACAT

Gene: Rfer_1840: TRAP malonate transporter, periplasmic subunit
 
Variovorax paradoxus S110
 
Verminephrobacter eiseniae EF01-2
TRAP malonate transporter, periplasmic subunit
matQ
 
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
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1841: TRAP malonate transporter, small permease subunit
 
Variovorax paradoxus S110
 
Verminephrobacter eiseniae EF01-2
TRAP malonate transporter, small permease subunit
matM
 
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
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1842: TRAP malonate transporter, large permease subunit
 
Variovorax paradoxus S110
 
Verminephrobacter eiseniae EF01-2
TRAP malonate transporter, large permease subunit
mdcA
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1768: Malonate decarboxylase, alpha subunit
 
Leptothrix cholodnii SP-6

Gene: Lcho_0079: Malonate decarboxylase, alpha subunit
 2
Methylibium petroleiphilum PM1

Gene: Mpe_A0794: Malonate decarboxylase, alpha subunit

Gene: Mpe_A2895: Malonate decarboxylase, alpha subunit
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0946: Malonate decarboxylase, alpha subunit
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1843: Malonate decarboxylase, alpha subunit
 
Variovorax paradoxus S110

Gene: Vapar_5374: Malonate decarboxylase, alpha subunit
 
Verminephrobacter eiseniae EF01-2

Gene: Veis_2896: Malonate decarboxylase, alpha subunit
Malonate decarboxylase, alpha subunit
mdcC
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1767: Malonate decarboxylase delta subunit, acyl-carrier protein
 
Leptothrix cholodnii SP-6

Gene: Lcho_0078: Malonate decarboxylase delta subunit, acyl-carrier protein
 2
Methylibium petroleiphilum PM1

Gene: Mpe_A0793: Malonate decarboxylase delta subunit, acyl-carrier protein

Gene: Mpe_A2894: Malonate decarboxylase delta subunit, acyl-carrier protein
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0948: Malonate decarboxylase delta subunit, acyl-carrier protein
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1844: Malonate decarboxylase delta subunit, acyl-carrier protein
 
Variovorax paradoxus S110

Gene: Vapar_5373: Malonate decarboxylase delta subunit, acyl-carrier protein
 
Verminephrobacter eiseniae EF01-2

Gene: Veis_2895: Malonate decarboxylase delta subunit, acyl-carrier protein
Malonate decarboxylase delta subunit, acyl-carrier protein
mdcD
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1766: Malonate decarboxylase, beta subunit
 
Leptothrix cholodnii SP-6

Gene: Lcho_0077: Malonate decarboxylase, beta subunit
 2
Methylibium petroleiphilum PM1

Gene: Mpe_A2893: Malonate decarboxylase, beta subunit

Gene: Mpe_A0792: Malonate decarboxylase, beta subunit
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0949: Malonate decarboxylase, beta subunit
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1845: Malonate decarboxylase, beta subunit
 
Variovorax paradoxus S110

Gene: Vapar_5372: Malonate decarboxylase, beta subunit
 
Verminephrobacter eiseniae EF01-2

Gene: Veis_2894: Malonate decarboxylase, beta subunit
Malonate decarboxylase, beta subunit
mdcE
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1765: Malonate decarboxylase gamma subunit
 
Leptothrix cholodnii SP-6

Gene: Lcho_0076: Malonate decarboxylase gamma subunit
 2
Methylibium petroleiphilum PM1

Gene: Mpe_A2892: Malonate decarboxylase gamma subunit

Gene: Mpe_A0791: Malonate decarboxylase gamma subunit
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0950: Malonate decarboxylase gamma subunit
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1846: Malonate decarboxylase gamma subunit
 
Variovorax paradoxus S110

Gene: Vapar_5371: Malonate decarboxylase gamma subunit
 
Verminephrobacter eiseniae EF01-2
Malonate decarboxylase gamma subunit
mdcG
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1764: holo-ACP synthase, malonate decarboxylase-specific
 
Leptothrix cholodnii SP-6

Gene: Lcho_0075: holo-ACP synthase, malonate decarboxylase-specific
 
Methylibium petroleiphilum PM1

Gene: Mpe_A0790: holo-ACP synthase, malonate decarboxylase-specific
 
Polaromonas naphthalenivorans CJ2
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1847: holo-ACP synthase, malonate decarboxylase-specific
 
Variovorax paradoxus S110

Gene: Vapar_5370: holo-ACP synthase, malonate decarboxylase-specific
 
Verminephrobacter eiseniae EF01-2
holo-ACP synthase, malonate decarboxylase-specific
mdcB
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1763: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
 
Leptothrix cholodnii SP-6

Gene: Lcho_0074: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
 2
Methylibium petroleiphilum PM1

Gene: Mpe_A2891: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)

Gene: Mpe_A0789: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0947: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1848: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
 
Variovorax paradoxus S110

Gene: Vapar_5369: Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
 
Verminephrobacter eiseniae EF01-2
Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25)
mdcH
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1762: Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
 
Leptothrix cholodnii SP-6

Gene: Lcho_0073: Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
 
Methylibium petroleiphilum PM1

Gene: Mpe_A0788: Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0952: Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236

Gene: Rfer_1849: Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
 
Variovorax paradoxus S110

Gene: Vapar_5368: Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
 
Verminephrobacter eiseniae EF01-2
Malonyl CoA acyl carrier protein transacylase (EC 2.3.1.39)
Aave_1513
 
Acidovorax avenae subsp. citrulli AAC00-1

Gene: Aave_1513: putative exported protein
 
Acidovorax sp. JS42

Gene: Ajs_1078: putative exported protein
 
Comamonas testosteroni KF-1

Gene: CtesDRAFT_2353: putative exported protein
 
Delftia acidovorans SPH-1

Gene: Daci_2765: putative exported protein
*
Leptothrix cholodnii SP-6

Site:
position = -61
score = 3.80008
sequence = ATGTATACGT

Gene: Lcho_0080: putative exported protein
*
Methylibium petroleiphilum PM1

Site:
position = -56
score = 4.60648
sequence = ATGTATACAT

Gene: Mpe_A2898: putative exported protein
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_2872: putative exported protein
 
Polaromonas sp. JS666

Gene: Bpro_2092: putative exported protein
 
Rhodoferax ferrireducens DSM 15236
 
Variovorax paradoxus S110

Gene: Vapar_2537: putative exported protein
 
Verminephrobacter eiseniae EF01-2

Gene: Veis_2753: putative exported protein
putative exported protein
mdcR
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1770: Malonate utilization transcriptional regulator, LysR family
 
Leptothrix cholodnii SP-6
 
Methylibium petroleiphilum PM1

Gene: Mpe_A2897: Malonate utilization transcriptional regulator, LysR family
 
Polaromonas naphthalenivorans CJ2

Gene: Pnap_0955: Malonate utilization transcriptional regulator, LysR family
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236
 
Variovorax paradoxus S110

Gene: Vapar_5377: Malonate utilization transcriptional regulator, LysR family
 
Verminephrobacter eiseniae EF01-2
Malonate utilization transcriptional regulator, LysR family
matC
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1

Gene: Daci_1769: malonate transporter
 
Leptothrix cholodnii SP-6
 
Methylibium petroleiphilum PM1

Gene: Mpe_A2896: malonate transporter
 
Polaromonas naphthalenivorans CJ2
 
Polaromonas sp. JS666
 
Rhodoferax ferrireducens DSM 15236
 
Variovorax paradoxus S110
 
Verminephrobacter eiseniae EF01-2
malonate transporter
 
CRON 2.
mdcY
 
Acidovorax avenae subsp. citrulli AAC00-1
 
Acidovorax sp. JS42
 
Comamonas testosteroni KF-1
 
Delftia acidovorans SPH-1
*
Leptothrix cholodnii SP-6

Site:
position = -101
score = 3.80008
sequence = ACGTATACAT

Gene: Lcho_0081: Transcriptional regulator of malonate metabolism, GntR family
*
Methylibium petroleiphilum PM1

Site:
position = -62
score = 4.60648
sequence = ATGTATACAT

Gene: Mpe_A2899: Transcriptional regulator of malonate metabolism, GntR family
 
Polaromonas naphthalenivorans CJ2
 
Polaromonas sp. JS666
*
Rhodoferax ferrireducens DSM 15236

Site:
position = -90
score = 4.60648
sequence = ATGTATACAT

Site:
position = -25
score = 3.80786
sequence = TTGCATACCA

Gene: Rfer_1839: Transcriptional regulator of malonate metabolism, GntR family
 
Variovorax paradoxus S110
 
Verminephrobacter eiseniae EF01-2
Transcriptional regulator of malonate metabolism, GntR 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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