Regulog HypR - Rhodobacterales

Properties
Regulator type:	Transcription factor
Regulator family:	GntR/Others
Regulation mode:	activator (repressor)
Biological process:	Proline and 4-hydrohyproline utilization
Effector:	4-hydroxyproline
Phylum:	Proteobacteria/alpha
Visualization:
	Allows to visualize regulog content in the context of metabolic pathways

Built upon 10 sites [see more]

Member of regulog collections

By taxonomy - Rhodobacterales
By trascription factor - HypR
By TF family - GntR/Others
By effector - 4-hydroxyproline
By pathway - Proline and 4-hydrohyproline utilization

Statistics of regulated genes
Genome	Genes	Operons
Rhodobacter sphaeroides 2.4.1
Paracoccus denitrificans PD1222	15	4
Jannaschia sp. CCS1
Rhodobacterales bacterium HTCC2654
Oceanicola granulosus HTCC2516	5	4
Loktanella vestfoldensis SKA53
Oceanicola batsensis HTCC2597
Roseovarius nubinhibens ISM	4	1
Roseovarius sp. 217
Sulfitobacter sp. EE-36
Silicibacter TM1040
Silicibacter pomeroyi DSS-3
Roseobacter sp. MED193
Hyphomonas neptunium ATCC 15444
Oceanicaulis alexandrii HTCC2633

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

CRON 1.
hypH	Rhodobacter sphaeroides 2.4.1 Gene: RSP_3656: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible	2 Paracoccus denitrificans PD1222* Site: position = -94 score = 3.99007 sequence = TTTTGCATACATGA Gene: Pden_4865: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible Gene: Pden_3264: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597 Gene: OB2597_14386: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible	Roseovarius nubinhibens ISM Gene: ISM_08240: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3 Gene: SPOA0260: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible
hypM	Rhodobacter sphaeroides 2.4.1	* Paracoccus denitrificans PD1222 Site: position = -111 score = 3.53292 sequence = TTTTGTATATTAGT Gene: Pden_4864: Predicted hydroxyproline ABC transporter, substrate-binding protein	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16580: Predicted hydroxyproline ABC transporter, substrate-binding protein	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline ABC transporter, substrate-binding protein
hypN	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4863: Predicted hydroxyproline ABC transporter, permease protein	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16575: Predicted hydroxyproline ABC transporter, permease protein	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline ABC transporter, permease protein
hypP	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4862: Predicted hydroxyproline ABC transporter, permease protein	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16570: Predicted hydroxyproline ABC transporter, permease protein	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline ABC transporter, permease protein
hypQ	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4861: Predicted hydroxyproline ABC transporter, ATP-binding protein	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16565: Predicted hydroxyproline ABC transporter, ATP-binding protein	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline ABC transporter, ATP-binding protein
hypO	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4860: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516 Gene: OG2516_08202: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16535: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_3200: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster	Silicibacter pomeroyi DSS-3 Gene: SPOA0262: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster	Roseobacter sp. MED193 Gene: MED193_09610: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster
hypE	Rhodobacter sphaeroides 2.4.1	2 Paracoccus denitrificans PD1222 Gene: Pden_3467: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) Gene: Pden_4859: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	* Oceanicola granulosus HTCC2516 Site: position = -78 score = 4.79247 sequence = CCTTGTCGACAACG Gene: OG2516_07016: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16540: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_3199: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)	Silicibacter pomeroyi DSS-3 Gene: SPOA0266: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)	Roseobacter sp. MED193 Gene: MED193_09620: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8)
hypA	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4858: Predicted hydroxyproline TRAP-type transport system, small permease component	Jannaschia sp. CCS1 Gene: Jann_1449: Predicted hydroxyproline TRAP-type transport system, small permease component	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM Gene: ISM_03720: Predicted hydroxyproline TRAP-type transport system, small permease component	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_1590: Predicted hydroxyproline TRAP-type transport system, small permease component	Silicibacter pomeroyi DSS-3 Gene: SPO1772: Predicted hydroxyproline TRAP-type transport system, small permease component	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline TRAP-type transport system, small permease component
hypB	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4857: Predicted hydroxyproline TRAP-type transport system, large permease component	Jannaschia sp. CCS1 Gene: Jann_1450: Predicted hydroxyproline TRAP-type transport system, large permease component	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM Gene: ISM_03725: Predicted hydroxyproline TRAP-type transport system, large permease component	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_1589: Predicted hydroxyproline TRAP-type transport system, large permease component	Silicibacter pomeroyi DSS-3 Gene: SPO1771: Predicted hydroxyproline TRAP-type transport system, large permease component	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline TRAP-type transport system, large permease component
hypC	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4856: Predicted hydroxyproline TRAP-type transport system, periplasmic component	Jannaschia sp. CCS1 Gene: Jann_1448: Predicted hydroxyproline TRAP-type transport system, periplasmic component	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM Gene: ISM_03715: Predicted hydroxyproline TRAP-type transport system, periplasmic component	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_1591: Predicted hydroxyproline TRAP-type transport system, periplasmic component	Silicibacter pomeroyi DSS-3 Gene: SPO1773: Predicted hydroxyproline TRAP-type transport system, periplasmic component	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted hydroxyproline TRAP-type transport system, periplasmic component
hypS	Rhodobacter sphaeroides 2.4.1	3 Paracoccus denitrificans PD1222* Gene: Pden_4855: Putative L-lactate/Malate dehydrogenase Site: position = -53 score = 3.99007 sequence = TCATGTATGCAAAA Gene: Pden_4866: Putative L-lactate/Malate dehydrogenase Gene: Pden_0941: Putative L-lactate/Malate dehydrogenase	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	* Oceanicola granulosus HTCC2516 Site: position = -96 score = 4.79247 sequence = CGTTGTCGACAAGG Gene: OG2516_07021: Putative L-lactate/Malate dehydrogenase	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16560: Putative L-lactate/Malate dehydrogenase	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_3323: Putative L-lactate/Malate dehydrogenase	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Putative L-lactate/Malate dehydrogenase
hypX	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_4854: Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM	Roseovarius sp. 217 Gene: ROS217_16550: Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3 Gene: SPO0606: Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase
hypY	Rhodobacter sphaeroides 2.4.1	Paracoccus denitrificans PD1222 Gene: Pden_1184: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Jannaschia sp. CCS1 Gene: Jann_1529: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Rhodobacterales bacterium HTCC2654	Oceanicola granulosus HTCC2516 Gene: OG2516_07011: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM Gene: ISM_08250: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Roseovarius sp. 217 Gene: ROS217_16530: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_3201: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Silicibacter pomeroyi DSS-3 Gene: SPO0607: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive
hypD	Rhodobacter sphaeroides 2.4.1	* Paracoccus denitrificans PD1222 Site: position = -88 score = 4.82649 sequence = CTTTGTCGACAAAT Gene: Pden_4867: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	* Oceanicola granulosus HTCC2516 Site: position = -100 score = 4.78023 sequence = TCTTGTCGACAAAC Gene: OG2516_07031: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM Gene: ISM_08255: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Roseovarius sp. 217 Gene: ROS217_16545: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Sulfitobacter sp. EE-36	Silicibacter TM1040 Gene: TM1040_3198: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Silicibacter pomeroyi DSS-3 Gene: SPOA0267: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Roseobacter sp. MED193 Gene: MED193_09625: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted

CRON 2.
COG4664	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 Site: position = -91 score = 3.19022 sequence = TTGTGTCGACTCAA Gene: ISM_10311: TRAP-type C4-dicarboxylate transport system, periplasmic component	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	TRAP-type C4-dicarboxylate transport system, periplasmic component
COG3090	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 Gene: ISM_10306: TRAP-type C4-dicarboxylate transport system, small permease component	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	TRAP-type C4-dicarboxylate transport system, small permease component
COG4663	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 Gene: ISM_10301: TRAP-type C4-dicarboxylate transport system, large permease component	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	TRAP-type C4-dicarboxylate transport system, large permease component
hypR	Rhodobacter sphaeroides 2.4.1	* Paracoccus denitrificans PD1222 Site: position = -41 score = 3.4022 sequence = AGTTGTCGACGTCA Gene: Pden_4868: Predicted regulator for proline and hydrohyproline utilization, GntR family	Jannaschia sp. CCS1	Rhodobacterales bacterium HTCC2654	* Oceanicola granulosus HTCC2516 Site: position = -25 score = 4.13568 sequence = ACCTGTCGACAACG Gene: OG2516_07036: Predicted regulator for proline and hydrohyproline utilization, GntR family	Loktanella vestfoldensis SKA53	Oceanicola batsensis HTCC2597	Roseovarius nubinhibens ISM Gene: ISM_10296: Predicted regulator for proline and hydrohyproline utilization, GntR family	Roseovarius sp. 217	Sulfitobacter sp. EE-36	Silicibacter TM1040	Silicibacter pomeroyi DSS-3	Roseobacter sp. MED193	Hyphomonas neptunium ATCC 15444	Oceanicaulis alexandrii HTCC2633	Predicted regulator for proline and hydrohyproline 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 HypR - Rhodobacterales

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