Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Regulon of TnrA in Paenibacillus sp. JDR-2

Properties
Regulator type: Transcription factor
TF locus tag: Pjdr2_5154
Regulator family: MerR
Regulation mode: repressor (activator)
Biological process: Nitrogen assimilation
Effector: NrgB, ammonium uptake protein; NrgA, ammonium uptake protein; Feedback-inhibited GlnA, glutamine synthetase
Regulog: TnrA - Bacillales
Statistics of regulated genes:
- Genes 71
- Operons 16
Visualization:
Allows to visualize regulon content in the context of metabolic pathways
Built upon 304 sites [see more]
Member of regulog collections
Regulated operons
Locus Tag Name Function

Position: -255
Score: 4.6
Sequence: GGTGAGAAAATGTTACA
Locus tag: Pjdr2_4828
Name: appA
Funciton: Oligopeptide ABC transporter (substrate-binding)
appA
Oligopeptide ABC transporter (substrate-binding)

Position: -63
Score: 4.7
Sequence: TGTTATCTAACCTAACA
Locus tag: Pjdr2_2874
Name: glnQ
Funciton: Glutamine transport ATP-binding protein GlnQ (TC 3.A.1.3.2)
Locus tag: Pjdr2_2875
Name: glnH
Funciton: Glutamine ABC transporter, periplasmic glutamine-binding protein (TC 3.A.1.3.2)
Locus tag: Pjdr2_2876
Name: glnM
Funciton: Glutamine transport system permease protein GlnP (TC 3.A.1.3.2)
Locus tag: Pjdr2_2877
Name: glnP
Funciton: Glutamine transport system permease protein GlnP (TC 3.A.1.3.2)
glnQ
Glutamine transport ATP-binding protein GlnQ (TC 3.A.1.3.2)
glnH
Glutamine ABC transporter, periplasmic glutamine-binding protein (TC 3.A.1.3.2)
glnM
Glutamine transport system permease protein GlnP (TC 3.A.1.3.2)
glnP
Glutamine transport system permease protein GlnP (TC 3.A.1.3.2)

Position: -310
Score: 5
Sequence: TGTTATTATATATAACA
Position: -249
Score: 4
Sequence: TGTCAAGTATGTTGACA
Locus tag: Pjdr2_5917
Name: nasD
Funciton: Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
Locus tag: Pjdr2_5916
Name: nasE
Funciton: Nitrite reductase [NAD(P)H] small subunit (EC 1.7.1.4)
nasD
Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
nasE
Nitrite reductase [NAD(P)H] small subunit (EC 1.7.1.4)

Position: -223
Score: 4
Sequence: TGTCAATAAACTTAACA
Position: -159
Score: 4
Sequence: TGTGACCTATATTGACA
Locus tag: Pjdr2_2174
Name: null
Funciton: Molybdenum cofactor synthesis domain protein
Locus tag: Pjdr2_2175
Name: nasB
Funciton: Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
Locus tag: Pjdr2_2176
Name: nasC
Funciton: Assimilatory nitrate reductase large subunit (EC:1.7.99.4)
Locus tag: Pjdr2_2177
Name: null
Funciton: Formate dehydrogenase family accessory protein
Locus tag: Pjdr2_2178
Name: null
Funciton: Molybdopterin-guanine dinucleotide biosynthesis protein B
Molybdenum cofactor synthesis domain protein
nasB
Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
nasC
Assimilatory nitrate reductase large subunit (EC:1.7.99.4)
Formate dehydrogenase family accessory protein
Molybdopterin-guanine dinucleotide biosynthesis protein B

Position: -159
Score: 4.2
Sequence: TGTGAAAAAACTTAACA
Position: -34
Score: 4.5
Sequence: TGTTAGTAAACATCACA
Locus tag: Pjdr2_2141
Name: nrgA
Funciton: Ammonium transporter
Locus tag: Pjdr2_2142
Name: null
Funciton: Predicted nucleotidyltransferase DUF294 family
Locus tag: Pjdr2_2143
Name: dpo3
Funciton: DNA polymerase III, epsilon subunit
nrgA
Ammonium transporter
Predicted nucleotidyltransferase DUF294 family
dpo3
DNA polymerase III, epsilon subunit

Position: -183
Score: 4.4
Sequence: TGGTATATTAATTAACA
Locus tag: Pjdr2_5833
Name: oppA
Funciton: Oligopeptide ABC transporter (binding lipoprotein)
Locus tag: Pjdr2_5832
Name: oppB
Funciton: Oligopeptide ABC transporter (permease)
Locus tag: Pjdr2_5831
Name: oppC
Funciton: Oligopeptide ABC transporter (permease)
Locus tag: Pjdr2_5830
Name: oppD
Funciton: Oligopeptide ABC transporter (ATP-binding protein)
Locus tag: Pjdr2_5829
Name: oppF
Funciton: Oligopeptide ABC transporter (ATP-binding protein)
oppA
Oligopeptide ABC transporter (binding lipoprotein)
oppB
Oligopeptide ABC transporter (permease)
oppC
Oligopeptide ABC transporter (permease)
oppD
Oligopeptide ABC transporter (ATP-binding protein)
oppF
Oligopeptide ABC transporter (ATP-binding protein)

Position: -55
Score: 4.9
Sequence: TGTTATATAAAGTAACA
Locus tag: Pjdr2_3327
Name: null
Funciton: Hypothetical protein
Locus tag: Pjdr2_3326
Name: null
Funciton: N-ethylammeline chlorohydrolase
Locus tag: Pjdr2_3325
Name: pucA
Funciton: Xanthine dehydrogenase subunit A
Locus tag: Pjdr2_3324
Name: pucB
Funciton: Xanthine dehydrogenase
Hypothetical protein
N-ethylammeline chlorohydrolase
pucA
Xanthine dehydrogenase subunit A
pucB
Xanthine dehydrogenase

Position: -179
Score: 4.1
Sequence: TGTGATCTATTGTTACG
Position: -96
Score: 4.3
Sequence: TGTAAGATATATTGACG
Locus tag: Pjdr2_3323
Name: null
Funciton: Basic membrane lipoprotein
Locus tag: Pjdr2_3322
Name: null
Funciton: ABC transporter related
Locus tag: Pjdr2_3321
Name: null
Funciton: Inner-membrane translocator
Locus tag: Pjdr2_3320
Name: null
Funciton: Inner-membrane translocator
Locus tag: Pjdr2_3319
Name: pucC
Funciton: Xanthine dehydrogenase, FAD binding subunit (EC 1.17.1.4)
Locus tag: Pjdr2_3318
Name: pucD
Funciton: Xanthine dehydrogenase, molybdenum binding subunit (EC 1.17.1.4)
Locus tag: Pjdr2_3317
Name: null
Funciton: (2Fe-2S)-binding domain protein
Locus tag: Pjdr2_3316
Name: null
Funciton: Uricase (EC 1.7.3.3)
Locus tag: Pjdr2_3315
Name: pucL
Funciton: 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase (EC 4.1.1.n1) / Uricase (EC 1.7.3.3)
Locus tag: Pjdr2_3314
Name: pucM
Funciton: 5-hydroxyisourate hydrolase
Locus tag: Pjdr2_3313
Name: pucH
Funciton: Allantoinase (EC 3.5.2.5)
Locus tag: Pjdr2_3312
Name: pucF
Funciton: Allantoate amidohydrolase (EC 3.5.3.9)
Locus tag: Pjdr2_3311
Name: pucG
Funciton: Serine--pyruvate aminotransferase (EC 2.6.1.51) / L-alanine:glyoxylate aminotransferase (EC 2.6.1.44)
Basic membrane lipoprotein
ABC transporter related
Inner-membrane translocator
Inner-membrane translocator
pucC
Xanthine dehydrogenase, FAD binding subunit (EC 1.17.1.4)
pucD
Xanthine dehydrogenase, molybdenum binding subunit (EC 1.17.1.4)
(2Fe-2S)-binding domain protein
Uricase (EC 1.7.3.3)
pucL
2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase (EC 4.1.1.n1) / Uricase (EC 1.7.3.3)
pucM
5-hydroxyisourate hydrolase
pucH
Allantoinase (EC 3.5.2.5)
pucF
Allantoate amidohydrolase (EC 3.5.3.9)
pucG
Serine--pyruvate aminotransferase (EC 2.6.1.51) / L-alanine:glyoxylate aminotransferase (EC 2.6.1.44)

Position: -169
Score: 4.9
Sequence: TGTTATGAAATGTAACA
Position: -31
Score: 3.9
Sequence: AGTTAACAAATGTGACA
Locus tag: Pjdr2_3622
Name: null
Funciton: Cytosine deaminase (EC 3.5.4.1)
Locus tag: Pjdr2_3621
Name: null
Funciton: Extracellular ligand-binding receptor
Locus tag: Pjdr2_3620
Name: null
Funciton: Inner-membrane translocator
Locus tag: Pjdr2_3619
Name: null
Funciton: ABC transporter related
Locus tag: Pjdr2_3618
Name: null
Funciton: ABC transporter related
Locus tag: Pjdr2_3617
Name: null
Funciton: Cytosine deaminase (EC 3.5.4.1)
Cytosine deaminase (EC 3.5.4.1)
Extracellular ligand-binding receptor
Inner-membrane translocator
ABC transporter related
ABC transporter related
Cytosine deaminase (EC 3.5.4.1)

Position: -47
Score: 5.1
Sequence: TGTTATCTATTCTAACA
Locus tag: Pjdr2_6138
Name: null
Funciton: Creatininase
Locus tag: Pjdr2_6137
Name: null
Funciton: Nitrate/sulfonate/bicarbonate ABC transporter ATP-binding protein
Locus tag: Pjdr2_6136
Name: null
Funciton: FAD linked oxidase domain protein
Locus tag: Pjdr2_6135
Name: null
Funciton: Nitrate/sulfonate/bicarbonate ABC transporter permease
Locus tag: Pjdr2_6134
Name: null
Funciton: Cytosine deaminase (EC 3.5.4.1)
Locus tag: Pjdr2_6133
Name: null
Funciton: Nitrate/sulfonate/bicarbonate ABC transporter substrate-binding protein
Locus tag: Pjdr2_6132
Name: null
Funciton: Flavoprotein
Locus tag: Pjdr2_6131
Name: null
Funciton: Cytosine deaminase (EC 3.5.4.1)
Creatininase
Nitrate/sulfonate/bicarbonate ABC transporter ATP-binding protein
FAD linked oxidase domain protein
Nitrate/sulfonate/bicarbonate ABC transporter permease
Cytosine deaminase (EC 3.5.4.1)
Nitrate/sulfonate/bicarbonate ABC transporter substrate-binding protein
Flavoprotein
Cytosine deaminase (EC 3.5.4.1)

Position: -11
Score: 4.5
Sequence: TGATATAAAAAGTGACA
Locus tag: Pjdr2_2655
Name: thyB
Funciton: Thymidylate synthase (EC 2.1.1.45)
Locus tag: Pjdr2_2656
Name: dfrA
Funciton: Dihydrofolate reductase (EC 1.5.1.3)
thyB
Thymidylate synthase (EC 2.1.1.45)
dfrA
Dihydrofolate reductase (EC 1.5.1.3)

Position: -302
Score: 5.7
Sequence: TGTTAGATAATCTAACA
Position: -41
Score: 5
Sequence: TGTTAGAAAACATTACA
Locus tag: Pjdr2_5154
Name: tnrA
Funciton: Transcriptional regulator of nitrogen assimilation, MerR family
tnrA
Transcriptional regulator of nitrogen assimilation, MerR family

Position: -286
Score: 4.2
Sequence: TCTTATATTTTCTTTCA
Position: -113
Score: 3.9
Sequence: TGTCATGTATATTGACG
Locus tag: Pjdr2_0557
Name: urtA
Funciton: Urea ABC transporter, urea binding protein
Locus tag: Pjdr2_0558
Name: urtB
Funciton: Urea ABC transporter, permease protein UrtB
Locus tag: Pjdr2_0559
Name: urtC
Funciton: Urea ABC transporter, permease protein UrtC
Locus tag: Pjdr2_0560
Name: utrD
Funciton: Urea ABC transporter, ATPase protein UrtD
Locus tag: Pjdr2_0561
Name: urtE
Funciton: Urea ABC transporter, ATPase protein UrtE
urtA
Urea ABC transporter, urea binding protein
urtB
Urea ABC transporter, permease protein UrtB
urtC
Urea ABC transporter, permease protein UrtC
utrD
Urea ABC transporter, ATPase protein UrtD
urtE
Urea ABC transporter, ATPase protein UrtE

Position: -84
Score: 5.2
Sequence: TGTCATATTACCTAACA
Locus tag: Pjdr2_4328
Name: ureA
Funciton: Urease gamma subunit (EC 3.5.1.5)
Locus tag: Pjdr2_4327
Name: ureB
Funciton: Urease beta subunit (EC 3.5.1.5)
Locus tag: Pjdr2_4326
Name: ureC
Funciton: Urease alpha subunit (EC 3.5.1.5)
Locus tag: Pjdr2_4325
Name: ureF
Funciton: Urease accessory protein UreF
Locus tag: Pjdr2_4324
Name: ureG
Funciton: Urease accessory protein UreG
Locus tag: Pjdr2_4323
Name: ureD
Funciton: Urease accessory protein UreD
ureA
Urease gamma subunit (EC 3.5.1.5)
ureB
Urease beta subunit (EC 3.5.1.5)
ureC
Urease alpha subunit (EC 3.5.1.5)
ureF
Urease accessory protein UreF
ureG
Urease accessory protein UreG
ureD
Urease accessory protein UreD

Position: -39
Score: 3.9
Sequence: TGTAAGATTATACACAA
Locus tag: Pjdr2_4626
Name: ywdK
Funciton: Uncharacterized small membrane protein
ywdK
Uncharacterized small membrane protein

Position: -34
Score: 3.6
Sequence: GGTTAGTAAACCTGACT
Locus tag: Pjdr2_5903
Name: ywrD
Funciton: Gamma-glutamyltranspeptidase (EC 2.3.2.2)
Locus tag: Pjdr2_5902
Name: null
Funciton: Putative gamma-glutamyltransferase
Locus tag: Pjdr2_5901
Name: null
Funciton: Fumarylacetoacetate (FAA) hydrolase
Locus tag: Pjdr2_5900
Name: null
Funciton: Asparaginase/glutaminase
Locus tag: Pjdr2_5899
Name: null
Funciton: Peroxiredoxin
ywrD
Gamma-glutamyltranspeptidase (EC 2.3.2.2)
Putative gamma-glutamyltransferase
Fumarylacetoacetate (FAA) hydrolase
Asparaginase/glutaminase
Peroxiredoxin
Export
Regulated Genes [ Tab delimited format ] DOWNLOAD
Regulatory Sites [ FASTA format ] DOWNLOAD