Regulog RutR - Pseudomonadaceae

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

Built upon 29 sites [see more]

Member of regulog collections

By trascription factor - RutR
By taxonomy - Pseudomonadaceae
By TF family - TetR
By effector - Uracil
By pathway - Pyrimidine utilization

Statistics of regulated genes
Genome	Genes	Operons
Pseudomonas aeruginosa PAO1	12	4
Pseudomonas entomophila L48	8	3
Pseudomonas putida KT2440	7	2
Pseudomonas syringae pv. tomato str. DC3000	12	4
Pseudomonas fluorescens Pf-5	13	4
Pseudomonas mendocina ymp	12	5
Pseudomonas stutzeri A1501	4	3
Azotobacter vinelandii AvOP

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

CRON 1.
ppuA	* Pseudomonas aeruginosa PAO1 Site: position = -65 score = 5.37429 sequence = TCCTGACCTCCTGGCCAGGT Gene: PA0136: Predicted ABC transporter, ATP-binding protein	Pseudomonas entomophila L48	Pseudomonas putida KT2440	* Pseudomonas syringae pv. tomato str. DC3000 Site: position = -64 score = 5.60056 sequence = ACCTGACCCATTGGCCAGGA Gene: PSPTO0769: Predicted ABC transporter, ATP-binding protein	* Pseudomonas fluorescens Pf-5 Site: position = -22 score = 5.38842 sequence = TCCTGACCCACTGGCCAGGA Gene: PFL_0728: Predicted ABC transporter, ATP-binding protein	Pseudomonas mendocina ymp	Pseudomonas stutzeri A1501 Gene: PST_2907: Predicted ABC transporter, ATP-binding protein	Azotobacter vinelandii AvOP	Predicted ABC transporter, ATP-binding protein
ppuC	Pseudomonas aeruginosa PAO1 Gene: PA0137: Predicted ABC transporter, permease protein	Pseudomonas entomophila L48	Pseudomonas putida KT2440	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO0768: Predicted ABC transporter, permease protein	Pseudomonas fluorescens Pf-5 Gene: PFL_0727: Predicted ABC transporter, permease protein	Pseudomonas mendocina ymp	Pseudomonas stutzeri A1501 Gene: PST_2908: Predicted ABC transporter, permease protein	Azotobacter vinelandii AvOP	Predicted ABC transporter, permease protein
ppuD	Pseudomonas aeruginosa PAO1 Gene: PA0138: Predicted ABC transporter, inner membrane protein precursor	Pseudomonas entomophila L48	Pseudomonas putida KT2440	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO0767: Predicted ABC transporter, inner membrane protein precursor	Pseudomonas fluorescens Pf-5 Gene: PFL_0726: Predicted ABC transporter, inner membrane protein precursor	Pseudomonas mendocina ymp	Pseudomonas stutzeri A1501 Gene: PST_2909: Predicted ABC transporter, inner membrane protein precursor	Azotobacter vinelandii AvOP	Predicted ABC transporter, inner membrane protein precursor

CRON 2.
pbuT4	Pseudomonas aeruginosa PAO1	Pseudomonas entomophila L48	Pseudomonas putida KT2440	Pseudomonas syringae pv. tomato str. DC3000	Pseudomonas fluorescens Pf-5	* Pseudomonas mendocina ymp Site: position = -36 score = 5.57314 sequence = GCCTGACCAATCGGACAACA Gene: Pmen_4444: Xanthine/uracil permease	Pseudomonas stutzeri A1501	Azotobacter vinelandii AvOP	Xanthine/uracil permease

CRON 3.
upp	Pseudomonas aeruginosa PAO1 Gene: PA4646: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Pseudomonas entomophila L48 Gene: PSEEN0888: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Pseudomonas putida KT2440 Gene: PP0746: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO1130: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Pseudomonas fluorescens Pf-5 Gene: PFL_5139: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Pseudomonas mendocina ymp Gene: Pmen_0946: Uracil phosphoribosyltransferase (EC 2.4.2.9)	* Pseudomonas stutzeri A1501 Site: position = -159 score = 5.25418 sequence = ACCTGACCGAACAGACTACT Gene: PST_3175: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Azotobacter vinelandii AvOP Gene: Avin_41360: Uracil phosphoribosyltransferase (EC 2.4.2.9)	Uracil phosphoribosyltransferase (EC 2.4.2.9)
uraA	Pseudomonas aeruginosa PAO1 Gene: PA4647: Uracil permease	Pseudomonas entomophila L48 Gene: PSEEN0887: Uracil permease	Pseudomonas putida KT2440 Gene: PP0745: Uracil permease	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO1129: Uracil permease	Pseudomonas fluorescens Pf-5 Gene: PFL_5140: Uracil permease	Pseudomonas mendocina ymp Gene: Pmen_0945: Uracil permease	Pseudomonas stutzeri A1501 Gene: PST_3176: Uracil permease	Azotobacter vinelandii AvOP	Uracil permease

CRON 4.
tsx3	Pseudomonas aeruginosa PAO1	Pseudomonas entomophila L48	Pseudomonas putida KT2440	Pseudomonas syringae pv. tomato str. DC3000	Pseudomonas fluorescens Pf-5	* Pseudomonas mendocina ymp Site: position = -92 score = 5.39399 sequence = AGCTGATCAGTTGGACAGCT Site: position = -54 score = 5.72201 sequence = ACCTGACCACACGGCCAGGA Gene: Pmen_3697: Nucleoside-binding outer membrane protein	Pseudomonas stutzeri A1501	Azotobacter vinelandii AvOP	Nucleoside-binding outer membrane protein
pbuT	* Pseudomonas aeruginosa PAO1 Site: position = -77 score = 5.27576 sequence = AGCTGATCACCTGGACAGCT Gene: PA0166: Xanthine/uracil permease	Pseudomonas entomophila L48	Pseudomonas putida KT2440	* Pseudomonas syringae pv. tomato str. DC3000 Site: position = -83 score = 5.05087 sequence = ACCTGAGCAGGTGGACAGTT Gene: PSPTO0772: Xanthine/uracil permease	* Pseudomonas fluorescens Pf-5 Site: position = -22 score = 5.34522 sequence = ACCTGAGCACCTGGACAGCT Gene: PFL_0731: Xanthine/uracil permease	Pseudomonas mendocina ymp Gene: Pmen_3698: Xanthine/uracil permease	Pseudomonas stutzeri A1501	Azotobacter vinelandii AvOP Gene: Avin_29700: Xanthine/uracil permease	Xanthine/uracil permease
rutR	Pseudomonas aeruginosa PAO1 Gene: PA0167: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Pseudomonas entomophila L48 Gene: PSEEN0679: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Pseudomonas putida KT2440 Gene: PP0594: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO0771: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Pseudomonas fluorescens Pf-5 Gene: PFL_0730: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Pseudomonas mendocina ymp Gene: Pmen_3699: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Pseudomonas stutzeri A1501 Gene: PST_2863: Transcriptional regulator RutR of pyrimidine catabolism, TetR family	Azotobacter vinelandii AvOP	Transcriptional regulator RutR of pyrimidine catabolism, TetR family
COG1739	Pseudomonas aeruginosa PAO1 Gene: PA0168: hypothetical protein, COG1739	Pseudomonas entomophila L48 Gene: PSEEN0678: hypothetical protein, COG1739	Pseudomonas putida KT2440 Gene: PP0593: hypothetical protein, COG1739	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO0770: hypothetical protein, COG1739	Pseudomonas fluorescens Pf-5 Gene: PFL_0729: hypothetical protein, COG1739	Pseudomonas mendocina ymp Gene: Pmen_3700: hypothetical protein, COG1739	Pseudomonas stutzeri A1501 Gene: PST_3607: hypothetical protein, COG1739	Azotobacter vinelandii AvOP	hypothetical protein, COG1739

CRON 5.
COG0726	* Pseudomonas aeruginosa PAO1 Site: position = -157 score = 5.9972 sequence = AACTGACCAGTCGGGCAGGT Gene: PA1517: putative polysaccharide deacetylase family protein	* Pseudomonas entomophila L48 Site: position = -179 score = 6.02948 sequence = AACTGACCAATCGGGCAAGT Gene: PSEEN1685: putative polysaccharide deacetylase family protein	* Pseudomonas putida KT2440 Site: position = -189 score = 5.97513 sequence = AGCTGACCAAACAGGCAGGT Gene: PP4286: putative polysaccharide deacetylase family protein	* Pseudomonas syringae pv. tomato str. DC3000 Site: position = -169 score = 6.01396 sequence = AACTGACCAGTCAGGCAGGT Gene: PSPTO3666: putative polysaccharide deacetylase family protein	* Pseudomonas fluorescens Pf-5 Site: position = -189 score = 5.65122 sequence = AGCTGACCATCCAGGCAAGT Gene: PFL_4366: putative polysaccharide deacetylase family protein	* Pseudomonas mendocina ymp Site: position = -166 score = 5.77917 sequence = TGCTGACCACTCAGGCAATT Gene: Pmen_2758: putative polysaccharide deacetylase family protein	Pseudomonas stutzeri A1501 Gene: PST_3093: putative polysaccharide deacetylase family protein	Azotobacter vinelandii AvOP Gene: Avin_21130: putative polysaccharide deacetylase family protein	putative polysaccharide deacetylase family protein
pucL	Pseudomonas aeruginosa PAO1 Gene: PA1516: Uricase (EC 1.7.3.3)	Pseudomonas entomophila L48 Gene: PSEEN1684: Uricase (EC 1.7.3.3)	Pseudomonas putida KT2440 Gene: PP4287: Uricase (EC 1.7.3.3)	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO3667: Uricase (EC 1.7.3.3)	Pseudomonas fluorescens Pf-5 Gene: PFL_4367: Uricase (EC 1.7.3.3)	Pseudomonas mendocina ymp Gene: Pmen_2759: Uricase (EC 1.7.3.3)	Pseudomonas stutzeri A1501 Gene: PST_3094: Uricase (EC 1.7.3.3)	Azotobacter vinelandii AvOP Gene: Avin_21120: Uricase (EC 1.7.3.3)	Uricase (EC 1.7.3.3)
allC	Pseudomonas aeruginosa PAO1 Gene: PA1515: Allantoicase (EC 3.5.3.4)	Pseudomonas entomophila L48	Pseudomonas putida KT2440	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO3668: Allantoicase (EC 3.5.3.4)	Pseudomonas fluorescens Pf-5 Gene: PFL_4368: Allantoicase (EC 3.5.3.4)	Pseudomonas mendocina ymp	Pseudomonas stutzeri A1501 Gene: PST_3095: Allantoicase (EC 3.5.3.4)	Azotobacter vinelandii AvOP Gene: Avin_21110: Allantoicase (EC 3.5.3.4)	Allantoicase (EC 3.5.3.4)
allA	Pseudomonas aeruginosa PAO1 Gene: PA1514: Ureidoglycolate hydrolase (EC 3.5.3.19)	Pseudomonas entomophila L48 Gene: PSEEN1683: Ureidoglycolate hydrolase (EC 3.5.3.19)	Pseudomonas putida KT2440 Gene: PP4288: Ureidoglycolate hydrolase (EC 3.5.3.19)	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO3669: Ureidoglycolate hydrolase (EC 3.5.3.19)	Pseudomonas fluorescens Pf-5 Gene: PFL_4369: Ureidoglycolate hydrolase (EC 3.5.3.19)	Pseudomonas mendocina ymp Gene: Pmen_2760: Ureidoglycolate hydrolase (EC 3.5.3.19)	Pseudomonas stutzeri A1501 Gene: PST_3096: Ureidoglycolate hydrolase (EC 3.5.3.19)	Azotobacter vinelandii AvOP Gene: Avin_21100: Ureidoglycolate hydrolase (EC 3.5.3.19)	Ureidoglycolate hydrolase (EC 3.5.3.19)
COG3748	Pseudomonas aeruginosa PAO1 Gene: PA1513: hypothetical protein, COG3748	Pseudomonas entomophila L48 Gene: PSEEN1682: hypothetical protein, COG3748	Pseudomonas putida KT2440 Gene: PP4289: hypothetical protein, COG3748	Pseudomonas syringae pv. tomato str. DC3000 Gene: PSPTO3670: hypothetical protein, COG3748	Pseudomonas fluorescens Pf-5 Gene: PFL_4370: hypothetical protein, COG3748	Pseudomonas mendocina ymp Gene: Pmen_2761: hypothetical protein, COG3748	Pseudomonas stutzeri A1501 Gene: PST_3097: hypothetical protein, COG3748	Azotobacter vinelandii AvOP Gene: Avin_21090: hypothetical protein, COG3748	hypothetical protein, COG3748
pbuT2	Pseudomonas aeruginosa PAO1 Gene: PA1507: Xanthine/uracil permease	Pseudomonas entomophila L48 Gene: PSEEN1681: Xanthine/uracil permease	Pseudomonas putida KT2440 Gene: PP4290: Xanthine/uracil permease	Pseudomonas syringae pv. tomato str. DC3000	Pseudomonas fluorescens Pf-5 Gene: PFL_4371: Xanthine/uracil permease	Pseudomonas mendocina ymp	Pseudomonas stutzeri A1501	Azotobacter vinelandii AvOP	Xanthine/uracil permease
tsx2	Pseudomonas aeruginosa PAO1	Pseudomonas entomophila L48 Gene: PSEEN1680: Nucleoside-binding outer membrane protein	Pseudomonas putida KT2440 Gene: PP4291: Nucleoside-binding outer membrane protein	Pseudomonas syringae pv. tomato str. DC3000	Pseudomonas fluorescens Pf-5	Pseudomonas mendocina ymp	Pseudomonas stutzeri A1501	Azotobacter vinelandii AvOP	Nucleoside-binding outer membrane protein

CRON 6.
pbuT2	Pseudomonas aeruginosa PAO1	Pseudomonas entomophila L48	Pseudomonas putida KT2440	Pseudomonas syringae pv. tomato str. DC3000	Pseudomonas fluorescens Pf-5 Gene: PFL_3157: Xanthine/uracil permease	* Pseudomonas mendocina ymp Site: position = -100 score = 5.49641 sequence = TTCTGACCGACCAGACAGCT Gene: Pmen_2762: Xanthine/uracil permease	Pseudomonas stutzeri A1501	Azotobacter vinelandii AvOP	Xanthine/uracil permease
tsx	* Pseudomonas aeruginosa PAO1 Site: position = -62 score = 5.76728 sequence = GCCTGACCGCTCGGACAGGT Gene: PA0165: Nucleoside-binding outer membrane protein	* Pseudomonas entomophila L48 Site: position = -349 score = 5.33518 sequence = ACCTGACCGAACGCCCAACT Site: position = -71 score = 5.23416 sequence = AGCTGACCCAAAAGACAAGA Site: position = -229 score = 5.15938 sequence = TACTGACCGCTCAGTCAATG Gene: PSEEN1679: Nucleoside-binding outer membrane protein	2 Pseudomonas putida KT2440* Site: position = -231 score = 5.15938 sequence = TACTGACCGCTCAGTCAATG Gene: PP4293: Nucleoside-binding outer membrane protein Gene: PP3214: Nucleoside-binding outer membrane protein	* Pseudomonas syringae pv. tomato str. DC3000 Site: position = -98 score = 5.38597 sequence = AGCTGACCAGACAGACAAAA Gene: PSPTO3671: Nucleoside-binding outer membrane protein	* Pseudomonas fluorescens Pf-5 Site: position = -253 score = 5.36276 sequence = ACCTGACCCAAGAGCCAACT Gene: PFL_4372: Nucleoside-binding outer membrane protein	Pseudomonas mendocina ymp Gene: Pmen_2763: Nucleoside-binding outer membrane protein	2 Pseudomonas stutzeri A1501* Site: position = -58 score = 5.52839 sequence = GCCTGACCGCTTGGACAACT Site: position = -224 score = 5.10431 sequence = AGCTGACGCATCGGTCAGGT Gene: PST_2862: Nucleoside-binding outer membrane protein Gene: PST_3099: Nucleoside-binding outer membrane protein	Azotobacter vinelandii AvOP	Nucleoside-binding outer membrane protein

CRON 7.
pbuT3	Pseudomonas aeruginosa PAO1 Gene: PA1519: Xanthine/uracil permease	* Pseudomonas entomophila L48 Site: position = -121 score = 4.67418 sequence = TCCTGACCCAGAAGTCAACA Gene: PSEEN1759: Xanthine/uracil permease	Pseudomonas putida KT2440 Gene: PP4284: Xanthine/uracil permease	Pseudomonas syringae pv. tomato str. DC3000	Pseudomonas fluorescens Pf-5 Gene: PFL_4364: Xanthine/uracil permease	* Pseudomonas mendocina ymp Site: position = -123 score = 4.76637 sequence = TCTTGACCGCTCGGTCAACA Gene: Pmen_2756: Xanthine/uracil permease	* Pseudomonas stutzeri A1501 Site: position = -63 score = 5.12352 sequence = TCCTGACCTTTCGGTCAACT Gene: PST_3090: Xanthine/uracil permease	Azotobacter vinelandii AvOP	Xanthine/uracil permease

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 RutR - Pseudomonadaceae

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