Regulog HypR - Rhodobacterales
| 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: | |
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Allows to visualize regulog content in the context of metabolic pathways |
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
| 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 |
| Genes | Function | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CRON 1. | ||||||||||||||||
| hypH |
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 |
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Gene: OB2597_14386: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible |
Gene: ISM_08240: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible |
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Gene: SPOA0260: Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible |
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Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) # hydroxy-L-proline-inducible |
| hypM |
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Paracoccus denitrificans PD1222 Site: position = -111 score = 3.53292 sequence = TTTTGTATATTAGT Gene: Pden_4864: Predicted hydroxyproline ABC transporter, substrate-binding protein |
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Gene: ROS217_16580: Predicted hydroxyproline ABC transporter, substrate-binding protein |
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Predicted hydroxyproline ABC transporter, substrate-binding protein |
| hypN |
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Gene: Pden_4863: Predicted hydroxyproline ABC transporter, permease protein |
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Gene: ROS217_16575: Predicted hydroxyproline ABC transporter, permease protein |
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Predicted hydroxyproline ABC transporter, permease protein |
| hypP |
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Gene: Pden_4862: Predicted hydroxyproline ABC transporter, permease protein |
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Gene: ROS217_16570: Predicted hydroxyproline ABC transporter, permease protein |
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Predicted hydroxyproline ABC transporter, permease protein |
| hypQ |
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Gene: Pden_4861: Predicted hydroxyproline ABC transporter, ATP-binding protein |
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Gene: ROS217_16565: Predicted hydroxyproline ABC transporter, ATP-binding protein |
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Predicted hydroxyproline ABC transporter, ATP-binding protein |
| hypO |
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Gene: Pden_4860: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
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Gene: OG2516_08202: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
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Gene: ROS217_16535: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
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Gene: TM1040_3200: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
Gene: SPOA0262: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
Gene: MED193_09610: D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
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D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster |
| hypE |
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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) |
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Oceanicola granulosus HTCC2516 Site: position = -78 score = 4.79247 sequence = CCTTGTCGACAACG Gene: OG2516_07016: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) |
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Gene: ROS217_16540: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) |
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Gene: TM1040_3199: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) |
Gene: SPOA0266: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) |
Gene: MED193_09620: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) |
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Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8) |
| hypA |
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Gene: Pden_4858: Predicted hydroxyproline TRAP-type transport system, small permease component |
Gene: Jann_1449: Predicted hydroxyproline TRAP-type transport system, small permease component |
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Gene: ISM_03720: Predicted hydroxyproline TRAP-type transport system, small permease component |
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Gene: TM1040_1590: Predicted hydroxyproline TRAP-type transport system, small permease component |
Gene: SPO1772: Predicted hydroxyproline TRAP-type transport system, small permease component |
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Predicted hydroxyproline TRAP-type transport system, small permease component |
| hypB |
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Gene: Pden_4857: Predicted hydroxyproline TRAP-type transport system, large permease component |
Gene: Jann_1450: Predicted hydroxyproline TRAP-type transport system, large permease component |
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Gene: ISM_03725: Predicted hydroxyproline TRAP-type transport system, large permease component |
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Gene: TM1040_1589: Predicted hydroxyproline TRAP-type transport system, large permease component |
Gene: SPO1771: Predicted hydroxyproline TRAP-type transport system, large permease component |
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Predicted hydroxyproline TRAP-type transport system, large permease component |
| hypC |
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Gene: Pden_4856: Predicted hydroxyproline TRAP-type transport system, periplasmic component |
Gene: Jann_1448: Predicted hydroxyproline TRAP-type transport system, periplasmic component |
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Gene: ISM_03715: Predicted hydroxyproline TRAP-type transport system, periplasmic component |
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Gene: TM1040_1591: Predicted hydroxyproline TRAP-type transport system, periplasmic component |
Gene: SPO1773: Predicted hydroxyproline TRAP-type transport system, periplasmic component |
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Predicted hydroxyproline TRAP-type transport system, periplasmic component |
| hypS |
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*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 |
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Oceanicola granulosus HTCC2516 Site: position = -96 score = 4.79247 sequence = CGTTGTCGACAAGG Gene: OG2516_07021: Putative L-lactate/Malate dehydrogenase |
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Gene: ROS217_16560: Putative L-lactate/Malate dehydrogenase |
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Gene: TM1040_3323: Putative L-lactate/Malate dehydrogenase |
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Putative L-lactate/Malate dehydrogenase |
| hypX |
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Gene: Pden_4854: Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase |
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Gene: ROS217_16550: Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase |
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Gene: SPO0606: Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase |
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Putative citrate/isocitrate isomerase or aconitase ## predicted from clustering to proline racemase |
| hypY |
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Gene: Pden_1184: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
Gene: Jann_1529: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
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Gene: OG2516_07011: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
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Gene: ISM_08250: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
Gene: ROS217_16530: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
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Gene: TM1040_3201: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
Gene: SPO0607: Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
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Proline racemase /4-hydroxyproline epimerase (EC 5.1.1.8), possible pseudogene, inactive |
| hypD |
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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 |
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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 |
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Gene: ISM_08255: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted |
Gene: ROS217_16545: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted |
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Gene: TM1040_3198: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted |
Gene: SPOA0267: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted |
Gene: MED193_09625: 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted |
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1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) # predicted |
| CRON 2. | ||||||||||||||||
| COG4664 |
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Roseovarius nubinhibens ISM Site: position = -91 score = 3.19022 sequence = TTGTGTCGACTCAA Gene: ISM_10311: TRAP-type C4-dicarboxylate transport system, periplasmic component |
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TRAP-type C4-dicarboxylate transport system, periplasmic component |
| COG3090 |
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Gene: ISM_10306: TRAP-type C4-dicarboxylate transport system, small permease component |
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TRAP-type C4-dicarboxylate transport system, small permease component |
| COG4663 |
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Gene: ISM_10301: TRAP-type C4-dicarboxylate transport system, large permease component |
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TRAP-type C4-dicarboxylate transport system, large permease component |
| hypR |
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Paracoccus denitrificans PD1222 Site: position = -41 score = 3.4022 sequence = AGTTGTCGACGTCA Gene: Pden_4868: Predicted regulator for proline and hydrohyproline utilization, GntR family |
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Oceanicola granulosus HTCC2516 Site: position = -25 score = 4.13568 sequence = ACCTGTCGACAACG Gene: OG2516_07036: Predicted regulator for proline and hydrohyproline utilization, GntR family |
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Gene: ISM_10296: Predicted regulator for proline and hydrohyproline utilization, GntR family |
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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).
|
Regulated Genes | [ Tab delimited format ] | DOWNLOAD |
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Regulatory Sites | [ FASTA format ] | DOWNLOAD |