Regulog Pden_3389 - Rhodobacterales

Properties
Regulator type:	Transcription factor
Regulator family:	GntR/Others
Regulation mode:
Biological process:	Glycolate utilization; Lactate utilization
Effector:
Phylum:	Proteobacteria/Alpha
Visualization:
	Allows to visualize regulog content in the context of metabolic pathways

Built upon 17 sites [see more]

Member of regulog collections

By taxonomy - Rhodobacterales
By TF family - GntR/Others
By pathway - Glycolate utilization
By pathway - Lactate utilization

Statistics of regulated genes
Genome	Genes	Operons
Hyphomonas neptunium ATCC 15444
Jannaschia sp. CCS1	7	2
Loktanella vestfoldensis SKA53
Oceanicaulis alexandrii HTCC2633
Oceanicola batsensis HTCC2597
Oceanicola granulosus HTCC2516
Paracoccus denitrificans PD1222	6	2
Rhodobacter sphaeroides 2.4.1
Rhodobacterales bacterium HTCC2654
Roseobacter sp. MED193
Roseovarius nubinhibens ISM	7	2
Roseovarius sp. 217	9	2
Silicibacter TM1040
Silicibacter pomeroyi DSS-3
Sulfitobacter sp. EE-36

Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes																Function

CRON 1.
sgaA	Hyphomonas neptunium ATCC 15444	* Jannaschia sp. CCS1 Site: position = -83 score = 4.15816 sequence = CGATTGTATGCATAAT Gene: Jann_1162: Serine--glyoxylate aminotransferase (EC 2.6.1.45)	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	* Roseovarius nubinhibens ISM Site: position = -238 score = 4.63656 sequence = ATTTTGCATTCACTAT Site: position = -142 score = 4.77773 sequence = AAAATGCATTCATTAT Gene: ISM_03990: Serine--glyoxylate aminotransferase (EC 2.6.1.45)	* Roseovarius sp. 217 Site: position = -100 score = 4.82514 sequence = ATATTGAATTCAGAAT Site: position = -93 score = 3.84485 sequence = ATTCAGAATTCAATTC Site: position = -88 score = 3.93977 sequence = GAATTCAATTCAACAA Gene: ROS217_09185: Serine--glyoxylate aminotransferase (EC 2.6.1.45)	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Serine--glyoxylate aminotransferase (EC 2.6.1.45)
tctC	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1 Gene: Jann_1161: Tricarboxylate transport protein TctC, periplasmic binding subunit	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM Gene: ISM_03995: Tricarboxylate transport protein TctC, periplasmic binding subunit	Roseovarius sp. 217 Gene: ROS217_09180: Tricarboxylate transport protein TctC, periplasmic binding subunit	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Tricarboxylate transport protein TctC, periplasmic binding subunit
tctB	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1 Gene: Jann_1160: Tricarboxylate transport protein TctB, small permease component	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM Gene: ISM_04000: Tricarboxylate transport protein TctB, small permease component	Roseovarius sp. 217 Gene: ROS217_09175: Tricarboxylate transport protein TctB, small permease component	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Tricarboxylate transport protein TctB, small permease component
tctA	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1 Gene: Jann_1159: Tricarboxylate transport membrane protein TctA, large permease component	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM Gene: ISM_04005: Tricarboxylate transport membrane protein TctA, large permease component	Roseovarius sp. 217 Gene: ROS217_09170: Tricarboxylate transport membrane protein TctA, large permease component	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Tricarboxylate transport membrane protein TctA, large permease component
ROS217_09165	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_09165: Enoyl-CoA hydratase/isomerase	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Enoyl-CoA hydratase/isomerase
caiB	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_09160: L-carnitine dehydratase/bile acid-inducible protein F	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	L-carnitine dehydratase/bile acid-inducible protein F
Jann_1165	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1 Gene: Jann_1165: 2-keto-4-pentenoate hydratase (EC 4.2.1.-)	Loktanella vestfoldensis SKA53 Gene: SKA53_00025: 2-keto-4-pentenoate hydratase (EC 4.2.1.-)	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM Gene: ISM_03980: 2-keto-4-pentenoate hydratase (EC 4.2.1.-)	Roseovarius sp. 217 Gene: ROS217_09155: 2-keto-4-pentenoate hydratase (EC 4.2.1.-)	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	2-keto-4-pentenoate hydratase (EC 4.2.1.-)
dld2	Hyphomonas neptunium ATCC 15444	* Jannaschia sp. CCS1 Site: position = -58 score = 4.15816 sequence = ATTATGCATACAATCG Gene: Jann_1163: D-lactate dehydrogenase, alternative	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM Gene: ISM_04010: D-lactate dehydrogenase, alternative	* Roseovarius sp. 217 Site: position = -71 score = 3.93977 sequence = TTGTTGAATTGAATTC Site: position = -66 score = 3.84485 sequence = GAATTGAATTCTGAAT Site: position = -59 score = 4.82514 sequence = ATTCTGAATTCAATAT Gene: ROS217_09190: D-lactate dehydrogenase, alternative	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	D-lactate dehydrogenase, alternative
Pden_3389	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1 Gene: Jann_1164: Transcriptional regulator associated with tricarboxylic transport, GntR family	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	* Paracoccus denitrificans PD1222 Site: position = -184 score = 3.94864 sequence = ACATTGCATGCAATGT Site: position = -100 score = 4.06799 sequence = TGTTTGCATGCAACTG Site: position = -38 score = 4.45277 sequence = AGATTGCATGCAACTT Gene: Pden_3389: Transcriptional regulator associated with tricarboxylic transport, GntR family	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	* Roseovarius nubinhibens ISM Site: position = -110 score = 4.77773 sequence = ATAATGAATGCATTTT Site: position = -14 score = 4.63656 sequence = ATAGTGAATGCAAAAT Gene: ISM_03985: Transcriptional regulator associated with tricarboxylic transport, GntR family	Roseovarius sp. 217 Gene: ROS217_09195: Transcriptional regulator associated with tricarboxylic transport, GntR family	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Transcriptional regulator associated with tricarboxylic transport, GntR family

CRON 2.
Pden_3388	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	* Paracoccus denitrificans PD1222 Site: position = -112 score = 3.94864 sequence = ACATTGCATGCAATGT Site: position = -196 score = 4.06799 sequence = CAGTTGCATGCAAACA Gene: Pden_3388: Homoserine dehydrogenase (EC 1.1.1.3)	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Homoserine dehydrogenase (EC 1.1.1.3)
tctC	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222 Gene: Pden_3387: Tricarboxylate transport protein TctC, periplasmic binding subunit	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217	Silicibacter TM1040	Silicibacter pomeroyi DSS-3 Gene: SPOA0249: Tricarboxylate transport protein TctC, periplasmic binding subunit	Sulfitobacter sp. EE-36	Tricarboxylate transport protein TctC, periplasmic binding subunit
Pden_3386	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222 Gene: Pden_3386: Kynurenine formamidase, bacterial (EC 3.5.1.9)	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Sulfitobacter sp. EE-36	Kynurenine formamidase, bacterial (EC 3.5.1.9)
tctB	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222 Gene: Pden_3385: Tricarboxylate transport protein TctB, small permease component	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217	Silicibacter TM1040	Silicibacter pomeroyi DSS-3 Gene: SPOA0251: Tricarboxylate transport protein TctB, small permease component	Sulfitobacter sp. EE-36	Tricarboxylate transport protein TctB, small permease component
tctA	Hyphomonas neptunium ATCC 15444	Jannaschia sp. CCS1	Loktanella vestfoldensis SKA53	Oceanicaulis alexandrii HTCC2633	Oceanicola batsensis HTCC2597	Oceanicola granulosus HTCC2516	Paracoccus denitrificans PD1222 Gene: Pden_3384: Tricarboxylate transport membrane protein TctA, large permease component	Rhodobacter sphaeroides 2.4.1	Rhodobacterales bacterium HTCC2654	Roseobacter sp. MED193	Roseovarius nubinhibens ISM	Roseovarius sp. 217	Silicibacter TM1040	Silicibacter pomeroyi DSS-3 Gene: SPOA0250: Tricarboxylate transport membrane protein TctA, large permease component	Sulfitobacter sp. EE-36	Tricarboxylate transport membrane protein TctA, large permease component

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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Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes -- version 3.2 --

Regulog Pden_3389 - Rhodobacterales

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 3.2 --