Regulog PhnF - Rhodobacterales

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

Built upon 23 sites [see more]

Member of regulog collections

By taxonomy - Rhodobacterales
By trascription factor - PhnF
By TF family - GntR/Others
By pathway - Phosphonate utilization

Statistics of regulated genes
Genome	Genes	Operons
Rhodobacter sphaeroides 2.4.1
Paracoccus denitrificans PD1222	8	2
Jannaschia sp. CCS1	2	2
Rhodobacterales bacterium HTCC2654	9	2
Oceanicola granulosus HTCC2516
Loktanella vestfoldensis SKA53	8	2
Oceanicola batsensis HTCC2597	10	2
Roseovarius nubinhibens ISM	9	2
Roseovarius sp. 217	10	2
Sulfitobacter sp. EE-36	8	2
Silicibacter TM1040	7	1
Silicibacter pomeroyi DSS-3	8	2
Roseobacter sp. MED193	4	2
Hyphomonas neptunium ATCC 15444
Oceanicaulis alexandrii HTCC2633

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

CRON 1.
phnG	Rhodobacter sphaeroides 2.4.1	* Paracoccus denitrificans PD1222 Site: position = -53 score = 5.64863 sequence = TTGTCTAGTTGTATAGAAAA Site: position = -45 score = 5.77579 sequence = TTGTATAGAAAACTAGACAA Gene: Pden_4782: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	Jannaschia sp. CCS1	* Rhodobacterales bacterium HTCC2654 Site: position = -37 score = 5.058 sequence = TTGTATAGTAGCGTAGACAA Gene: RB2654_09754: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	Oceanicola granulosus HTCC2516	* Loktanella vestfoldensis SKA53 Site: position = -37 score = 5.06879 sequence = TTGTCTAGTTGTATAGTAAA Gene: SKA53_06737: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Oceanicola batsensis HTCC2597 Site: position = -37 score = 5.93846 sequence = TTGTATAGGTAAATAGACAA Gene: OB2597_05575: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Roseovarius nubinhibens ISM Site: position = -39 score = 5.55379 sequence = TTGTATAATAACATAGACAA Gene: ISM_06260: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Roseovarius sp. 217 Site: position = -49 score = 5.52592 sequence = TTGTATAGTGATATCGACAA Gene: ROS217_04235: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Sulfitobacter sp. EE-36 Site: position = -37 score = 6.19612 sequence = TTGTCTAGTTGTATAGACAA Gene: EE36_08873: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Silicibacter TM1040 Site: position = -53 score = 4.48895 sequence = TTGTCTAGTTGTATAGGACA Gene: TM1040_3703: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Silicibacter pomeroyi DSS-3 Site: position = -47 score = 5.06879 sequence = TTGTCTAGTTGTATAGTGAA Gene: SPO0468: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	* Roseobacter sp. MED193 Site: position = -52 score = 5.06879 sequence = TTGTCTAGTTGTATAGAACA Gene: MED193_17604: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnG
phnH	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4781: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09749: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06732: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Oceanicola batsensis HTCC2597 Gene: OB2597_05570: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Roseovarius nubinhibens ISM Gene: ISM_06255: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Roseovarius sp. 217 Gene: ROS217_04240: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Sulfitobacter sp. EE-36 Gene: EE36_08878: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Silicibacter TM1040 Gene: TM1040_3702: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Silicibacter pomeroyi DSS-3 Gene: SPO0469: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Roseobacter sp. MED193 Gene: MED193_17609: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnH
phnI	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4780: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09744: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06727: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Oceanicola batsensis HTCC2597 Gene: OB2597_05565: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Roseovarius nubinhibens ISM Gene: ISM_06250: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Roseovarius sp. 217 Gene: ROS217_04245: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Sulfitobacter sp. EE-36 Gene: EE36_08883: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Silicibacter TM1040 Gene: TM1040_3701: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Silicibacter pomeroyi DSS-3 Gene: SPO0470: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Roseobacter sp. MED193 Gene: MED193_17614: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnI
Pden_0043	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09739: Hydrolase, haloacid dehalogenase-like family	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_04250: Hydrolase, haloacid dehalogenase-like family	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Hydrolase, haloacid dehalogenase-like family
phnJ	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4779: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09734: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06722: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Oceanicola batsensis HTCC2597 Gene: OB2597_05555: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Roseovarius nubinhibens ISM Gene: ISM_06245: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Roseovarius sp. 217 Gene: ROS217_04255: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Sulfitobacter sp. EE-36 Gene: EE36_08888: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Silicibacter TM1040 Gene: TM1040_3700: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Silicibacter pomeroyi DSS-3 Gene: SPO0471: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Roseobacter sp. MED193 Gene: MED193_17624: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnJ
phnK	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4778: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09729: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06717: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Oceanicola batsensis HTCC2597 Gene: OB2597_05550: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Roseovarius nubinhibens ISM Gene: ISM_06240: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Roseovarius sp. 217 Gene: ROS217_04260: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Sulfitobacter sp. EE-36 Gene: EE36_08893: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Silicibacter TM1040 Gene: TM1040_3699: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Silicibacter pomeroyi DSS-3 Gene: SPO0472: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Roseobacter sp. MED193 Gene: MED193_17629: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnK
corA	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_04265: magnesium/cobalt transport protein, MIT family	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	magnesium/cobalt transport protein, MIT family
phnL	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4777: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09724: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06712: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Oceanicola batsensis HTCC2597 Gene: OB2597_05545: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Roseovarius nubinhibens ISM Gene: ISM_06235: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Roseovarius sp. 217 Gene: ROS217_04270: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Sulfitobacter sp. EE-36 Gene: EE36_08898: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Silicibacter TM1040 Gene: TM1040_3698: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Silicibacter pomeroyi DSS-3 Gene: SPO0473: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Roseobacter sp. MED193 Gene: MED193_17634: Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Methylphosphonate degradation complex, carbon-phosphorus lyase subunit PhnL
phnN	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4776: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	* Jannaschia sp. CCS1 Site: position = -29 score = 5.28025 sequence = TTGTATAATTAAATGGACAA Gene: Jann_2855: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Rhodobacterales bacterium HTCC2654 Gene: RB2654_09719: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06707: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Oceanicola batsensis HTCC2597 Gene: OB2597_05540: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Roseovarius nubinhibens ISM Gene: ISM_06230: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Roseovarius sp. 217 Gene: ROS217_04275: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Sulfitobacter sp. EE-36 Gene: EE36_08903: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Silicibacter TM1040 Gene: TM1040_3697: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Silicibacter pomeroyi DSS-3 Gene: SPO0474: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Roseobacter sp. MED193 Gene: MED193_17639: Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Ribose 1,5-bisphosphokinase activity (phosphoribosyl diphosphate forming)
OB2597_05560	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597 Gene: OB2597_05560: hypothetical protein	Roseovarius nubinhibens ISM	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	hypothetical protein
phnM	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4421: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Jannaschia sp. CCS1 Gene: Jann_2853: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53 Gene: SKA53_06697: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Oceanicola batsensis HTCC2597 Gene: OB2597_05535: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Roseovarius nubinhibens ISM Gene: ISM_06225: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_3695: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Silicibacter pomeroyi DSS-3 Gene: SPO0476: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Roseobacter sp. MED193 Gene: MED193_17649: Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Alpha-D-ribose-1-methylphosphonate-5-triphosphate hydrolase

CRON 2.
phnF	Rhodobacter sphaeroides 2.4.1	* Paracoccus denitrificans PD1222 Site: position = -85 score = 5.42379 sequence = TTTTCTATACAACTAGACAA Site: position = -93 score = 5.92641 sequence = TTGTCTAGTTTTCTATACAA Gene: Pden_4783: Transcriptional regulator for phosphonate utilization, GntR family	* Jannaschia sp. CCS1 Site: position = -85 score = 5.27054 sequence = TTGTCCATTTAATTATACAA Gene: Jann_2856: Transcriptional regulator for phosphonate utilization, GntR family	* Rhodobacterales bacterium HTCC2654 Site: position = -75 score = 4.96822 sequence = TTGTCTACGCTACTATACAA Gene: RB2654_09759: Transcriptional regulator for phosphonate utilization, GntR family	Oceanicola granulosus HTCC2516	* Loktanella vestfoldensis SKA53 Site: position = -71 score = 4.84395 sequence = TTTACTATACAACTAGACAA Gene: SKA53_06742: Transcriptional regulator for phosphonate utilization, GntR family	* Oceanicola batsensis HTCC2597 Site: position = -79 score = 5.95419 sequence = TTGTCTATTTACCTATACAA Gene: OB2597_05580: Transcriptional regulator for phosphonate utilization, GntR family	* Roseovarius nubinhibens ISM Site: position = -94 score = 5.50138 sequence = TTGTCTATGTTATTATACAA Gene: ISM_06265: Transcriptional regulator for phosphonate utilization, GntR family	* Roseovarius sp. 217 Site: position = -85 score = 5.3902 sequence = TTGTCGATATCACTATACAA Gene: ROS217_04230: Transcriptional regulator for phosphonate utilization, GntR family	* Sulfitobacter sp. EE-36 Site: position = -76 score = 6.00362 sequence = TTGTCTATACAACTAGACAA Gene: EE36_08868: Transcriptional regulator for phosphonate utilization, GntR family	Silicibacter TM1040 Gene: TM1040_3704: Transcriptional regulator for phosphonate utilization, GntR family	* Silicibacter pomeroyi DSS-3 Site: position = -76 score = 4.84395 sequence = TTCACTATACAACTAGACAA Gene: SPO0467: Transcriptional regulator for phosphonate utilization, GntR family	* Roseobacter sp. MED193 Site: position = -76 score = 4.84395 sequence = TGTTCTATACAACTAGACAA Gene: MED193_17599: Transcriptional regulator for phosphonate utilization, GntR family	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Transcriptional regulator for phosphonate utilization, 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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Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes -- version 3.2 --

Regulog PhnF - Rhodobacterales

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