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

Regulon of TnrA in Bacillus amyloliquefaciens FZB42

Properties
Regulator type: Transcription factor
TF locus tag: RBAM_013130
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 85
- Operons 40
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: -64
Score: 4.8
Sequence: TGTTAAAAGATCTAACA
Locus tag: RBAM_017940
Name: alsT
Funciton: Sodium/alanine symporter family protein
alsT
Sodium/alanine symporter family protein

Position: -38
Score: 4.7
Sequence: TGTTAAATAATTTCACA
Locus tag: RBAM_011190
Name: argC
Funciton: N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38)
Locus tag: RBAM_011200
Name: argJ
Funciton: Glutamate N-acetyltransferase (EC 2.3.1.35) / N-acetylglutamate synthase (EC 2.3.1.1)
Locus tag: RBAM_011210
Name: argB
Funciton: Acetylglutamate kinase (EC 2.7.2.8)
Locus tag: RBAM_011220
Name: argD
Funciton: Acetylornithine aminotransferase (EC 2.6.1.11)
Locus tag: RBAM_011230
Name: carA
Funciton: Carbamoyl-phosphate synthase small chain (EC 6.3.5.5)
Locus tag: RBAM_011240
Name: carB
Funciton: Carbamoyl-phosphate synthase large chain (EC 6.3.5.5)
Locus tag: RBAM_011250
Name: argF
Funciton: Ornithine carbamoyltransferase (EC 2.1.3.3)
argC
N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38)
argJ
Glutamate N-acetyltransferase (EC 2.3.1.35) / N-acetylglutamate synthase (EC 2.3.1.1)
argB
Acetylglutamate kinase (EC 2.7.2.8)
argD
Acetylornithine aminotransferase (EC 2.6.1.11)
carA
Carbamoyl-phosphate synthase small chain (EC 6.3.5.5)
carB
Carbamoyl-phosphate synthase large chain (EC 6.3.5.5)
argF
Ornithine carbamoyltransferase (EC 2.1.3.3)

Position: -123
Score: 3.5
Sequence: TATCAGAAATTACGAAA
Locus tag: RBAM_024530
Name: glnQ
Funciton: Glutamine transport ATP-binding protein GlnQ (TC 3.A.1.3.2)
Locus tag: RBAM_024540
Name: glnH
Funciton: Glutamine ABC transporter, periplasmic glutamine-binding protein (TC 3.A.1.3.2)
Locus tag: RBAM_024550
Name: glnM
Funciton: Glutamine transport system permease protein GlnP (TC 3.A.1.3.2)
Locus tag: RBAM_024560
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: -82
Score: 4.3
Sequence: TGTTAAGATTCCTTACA
Position: -59
Score: 4.9
Sequence: TGACACAAAATATAACA
Locus tag: RBAM_017250
Name: glnR
Funciton: Transcriptional regulator of nitrogen excess response, MerR family
Locus tag: RBAM_017260
Name: glnA
Funciton: Glutamine synthetase type I (EC 6.3.1.2)
glnR
Transcriptional regulator of nitrogen excess response, MerR family
glnA
Glutamine synthetase type I (EC 6.3.1.2)

Position: -52
Score: 5
Sequence: TGTCAGATTTTATGACC
Locus tag: RBAM_018620
Name: gltA
Funciton: Glutamate synthase [NADPH] large chain (EC 1.4.1.13)
Locus tag: RBAM_018610
Name: gltB
Funciton: Glutamate synthase [NADPH] small chain (EC 1.4.1.13)
gltA
Glutamate synthase [NADPH] large chain (EC 1.4.1.13)
gltB
Glutamate synthase [NADPH] small chain (EC 1.4.1.13)

Position: -110
Score: 5
Sequence: GGTCATAAAATCTGACA
Locus tag: RBAM_018630
Name: gltC
Funciton: Transcriptional regulator of glutamate biosynthesis (LysR family)
gltC
Transcriptional regulator of glutamate biosynthesis (LysR family)

Position: -611
Score: 5.2
Sequence: TGTAATAAAATGTGACA
Locus tag: RBAM_025370
Name: ilvB
Funciton: Acetolactate synthase large subunit (EC 2.2.1.6)
Locus tag: RBAM_025360
Name: ilvH
Funciton: Acetolactate synthase small subunit (EC 2.2.1.6)
Locus tag: RBAM_025350
Name: ilvC
Funciton: Ketol-acid reductoisomerase (EC 1.1.1.86)
Locus tag: RBAM_025340
Name: leuA
Funciton: 2-isopropylmalate synthase (EC 2.3.3.13)
Locus tag: RBAM_025330
Name: leuB
Funciton: 3-isopropylmalate dehydrogenase (EC 1.1.1.85)
Locus tag: RBAM_025320
Name: leuC
Funciton: 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33)
Locus tag: RBAM_025310
Name: leuD
Funciton: 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33)
ilvB
Acetolactate synthase large subunit (EC 2.2.1.6)
ilvH
Acetolactate synthase small subunit (EC 2.2.1.6)
ilvC
Ketol-acid reductoisomerase (EC 1.1.1.86)
leuA
2-isopropylmalate synthase (EC 2.3.3.13)
leuB
3-isopropylmalate dehydrogenase (EC 1.1.1.85)
leuC
3-isopropylmalate dehydratase large subunit (EC 4.2.1.33)
leuD
3-isopropylmalate dehydratase small subunit (EC 4.2.1.33)

Position: -129
Score: 3.9
Sequence: AGTTATATTTTATCACT
Locus tag: RBAM_032200
Name: nagA
Funciton: N-acetylglucosamine-6-phosphate deacetylase (EC 3.5.1.25)
Locus tag: RBAM_032210
Name: nagB
Funciton: Glucosamine-6-phosphate deaminase (EC 3.5.99.6)
Locus tag: RBAM_032220
Name: nagR
Funciton: Transcriptional regulator of N-Acetylglucosamine utilization, GntR family
nagA
N-acetylglucosamine-6-phosphate deacetylase (EC 3.5.1.25)
nagB
Glucosamine-6-phosphate deaminase (EC 3.5.99.6)
nagR
Transcriptional regulator of N-Acetylglucosamine utilization, GntR family

Position: -100
Score: 4.8
Sequence: TGTAAGATAATGCGACA
Locus tag: RBAM_003530
Name: nasB
Funciton: Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
Locus tag: RBAM_003520
Name: nasC
Funciton: Assimilatory nitrate reductase large subunit (EC:1.7.99.4)
nasB
Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
nasC
Assimilatory nitrate reductase large subunit (EC:1.7.99.4)

Position: -84
Score: 4.9
Sequence: TGTTACATTTCATAACA
Locus tag: RBAM_003510
Name: nasD
Funciton: Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4)
Locus tag: RBAM_003500
Name: nasE
Funciton: Nitrite reductase [NAD(P)H] small subunit (EC 1.7.1.4)
Locus tag: RBAM_003490
Name: nasF
Funciton: Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) / Uroporphyrinogen-III synthase (EC 4.2.1.75)
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)
nasF
Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) / Uroporphyrinogen-III synthase (EC 4.2.1.75)

Position: -97
Score: 4.8
Sequence: TGTCGCATTATCTTACA
Locus tag: RBAM_003540
Name: nasA
Funciton: Nitrate/nitrite transporter
nasA
Nitrate/nitrite transporter

Position: -98
Score: 5.2
Sequence: TGTCAGATAACCTTACA
Locus tag: RBAM_033680
Name: nrgA
Funciton: Ammonium transporter
Locus tag: RBAM_033690
Name: nrgB
Funciton: Nitrogen regulatory protein P-II
nrgA
Ammonium transporter
nrgB
Nitrogen regulatory protein P-II

Position: -101
Score: 4.1
Sequence: TGTAATAATATACAACT
Locus tag: RBAM_011360
Name: appD
Funciton: Oligopeptide ABC transporter (ATP-binding protein)
Locus tag: RBAM_011370
Name: appF
Funciton: oligopeptide ABC transporter (ATP-binding protein)
Locus tag: RBAM_011380
Name: appA
Funciton: Oligopeptide ABC transporter (substrate-binding)
Locus tag: RBAM_011390
Name: appB
Funciton: Oligopeptide ABC transporter (permease)
Locus tag: RBAM_011400
Name: appC
Funciton: Oligopeptide ABC transporter (permease)
appD
Oligopeptide ABC transporter (ATP-binding protein)
appF
oligopeptide ABC transporter (ATP-binding protein)
appA
Oligopeptide ABC transporter (substrate-binding)
appB
Oligopeptide ABC transporter (permease)
appC
Oligopeptide ABC transporter (permease)

Position: -231
Score: 4.3
Sequence: TGACAGAAAAACTGACC
Locus tag: RBAM_011430
Name: oppA
Funciton: Oligopeptide ABC transporter (binding lipoprotein)
Locus tag: RBAM_011440
Name: oppB
Funciton: Oligopeptide ABC transporter (permease)
Locus tag: RBAM_011450
Name: oppC
Funciton: Oligopeptide ABC transporter (permease)
Locus tag: RBAM_011460
Name: oppD
Funciton: Oligopeptide ABC transporter (ATP-binding protein)
Locus tag: RBAM_011470
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: -40
Score: 4.4
Sequence: TGTAATAAATTGGAACA
Locus tag: RBAM_007720
Name: pel
Funciton: Pectate lyase precursor (EC 4.2.2.2)
pel
Pectate lyase precursor (EC 4.2.2.2)

Position: -50
Score: 4.9
Sequence: TGTGATAAAAACTGACA
Locus tag: RBAM_029500
Name: pucH
Funciton: Allantoinase (EC 3.5.2.5)
pucH
Allantoinase (EC 3.5.2.5)

Position: -146
Score: 4.9
Sequence: TGTCAGTTTTTATCACA
Locus tag: RBAM_029510
Name: pucR
Funciton: Transcriptional regulator of the purine degradation operon, PucR family
pucR
Transcriptional regulator of the purine degradation operon, PucR family

Position: -310
Score: 4.9
Sequence: TGTGAGATTACCTCACA
Locus tag: RBAM_023580
Name: recO
Funciton: DNA recombination and repair protein RecO
recO
DNA recombination and repair protein RecO

Position: -124
Score: 4.1
Sequence: TGTCAATTTTTCTGCCG
Position: -81
Score: 4.8
Sequence: CGTCAGAAAACCTGACA
Locus tag: RBAM_013130
Name: tnrA
Funciton: Transcriptional regulator of nitrogen assimilation, MerR family
tnrA
Transcriptional regulator of nitrogen assimilation, MerR family

Position: -308
Score: 4.2
Sequence: TGTTATGAGAAATGACA
Position: -203
Score: 3.9
Sequence: TGTAACCTTTCTTCACA
Locus tag: RBAM_033830
Name: ureA
Funciton: Urease gamma subunit (EC 3.5.1.5)
Locus tag: RBAM_033820
Name: ureB
Funciton: Urease beta subunit (EC 3.5.1.5)
Locus tag: RBAM_033810
Name: ureC
Funciton: Urease alpha subunit (EC 3.5.1.5)
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)

Position: -121
Score: 4.9
Sequence: TGTTATATTATCTGACT
Locus tag: RBAM_003850
Name: yclG
Funciton: Pectate lyase family protein
yclG
Pectate lyase family protein

Position: -137
Score: 4.9
Sequence: TGGTAGGTTTTCTGACA
Locus tag: RBAM_004280
Name: lamB
Funciton: Lactam utilization protein LamB
Locus tag: RBAM_004290
Name: ycsG
Funciton: Permease (transport protein)
Locus tag: RBAM_004300
Name: ycsI
Funciton: Hypothetical protein
Locus tag: RBAM_004310
Name: kipI
Funciton: Allophanate hydrolase 2 subunit 1 (EC 3.5.1.54)
Locus tag: RBAM_004320
Name: kipA
Funciton: Allophanate hydrolase 2 subunit 2 (EC 3.5.1.54)
Locus tag: RBAM_004330
Name: kipR
Funciton: Transcriptional regulator of initiation of developmental transcription at the onset of sporulation, IclR family
lamB
Lactam utilization protein LamB
ycsG
Permease (transport protein)
ycsI
Hypothetical protein
kipI
Allophanate hydrolase 2 subunit 1 (EC 3.5.1.54)
kipA
Allophanate hydrolase 2 subunit 2 (EC 3.5.1.54)
kipR
Transcriptional regulator of initiation of developmental transcription at the onset of sporulation, IclR family

Position: -54
Score: 4.5
Sequence: AGAAAGAAAATCTGACA
Locus tag: RBAM_004400
Name: ydaB
Funciton: Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3)
ydaB
Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3)

Position: -130
Score: 4.8
Sequence: TGTCAGGTTTTCTGACG
Position: -87
Score: 4.1
Sequence: CGGCAGAAAAATTGACA
Locus tag: RBAM_013140
Name: ykzB
Funciton: Hypothetical protein
Locus tag: RBAM_013150
Name: ykoL
Funciton: Hypothetical protein
ykzB
Hypothetical protein
ykoL
Hypothetical protein

Position: -261
Score: 4.9
Sequence: TGTGATCTTATCTGACA
Locus tag: RBAM_019340
Name: yodF
Funciton: Na+/solute symporter
yodF
Na+/solute symporter

Position: -210
Score: 4.1
Sequence: TTGAACATTTTGTTACA
Position: -85
Score: 4.3
Sequence: TGTCACATTTCCGGACA
Locus tag: RBAM_035380
Name: ysnE
Funciton: GNAT family acetyltransferase
ysnE
GNAT family acetyltransferase

Position: -26
Score: 3.6
Sequence: TGTAAGATAAAGAAAAA
Locus tag: RBAM_032990
Name: yttA
Funciton: Hypothetical protein
yttA
Hypothetical protein

Position: -76
Score: 4.8
Sequence: TGTTACATATTCTGACT
Locus tag: RBAM_029140
Name: yuiA
Funciton: Uncharacterized conserved protein contain two CXXC motifs
Locus tag: RBAM_029130
Name: yuiB
Funciton: Hypothetical protein
Locus tag: RBAM_029120
Name: yuiC
Funciton: Hypothetical protein
yuiA
Uncharacterized conserved protein contain two CXXC motifs
yuiB
Hypothetical protein
yuiC
Hypothetical protein

Position: -229
Score: 3.9
Sequence: TGAAATGAAATATAAAA
Position: -42
Score: 4.9
Sequence: TGTTATAATTAATAACA
Locus tag: RBAM_029160
Name: yumC
Funciton: Thioredoxin reductase (EC 1.8.1.9)
yumC
Thioredoxin reductase (EC 1.8.1.9)

Position: -37
Score: 4.8
Sequence: CGTCAGAAAATTTAACA
Locus tag: RBAM_030630
Name: yvgT
Funciton: Hypothetical membrane protein
yvgT
Hypothetical membrane protein

Position: -92
Score: 4.7
Sequence: CGTCAGAAAAAATAACA
Locus tag: RBAM_035200
Name: ywdI
Funciton: Hypothetical protein
Locus tag: RBAM_035190
Name: ywdJ
Funciton: Xanthine permease
Locus tag: RBAM_035180
Name: ywdK
Funciton: Uncharacterized small membrane protein
ywdI
Hypothetical protein
ywdJ
Xanthine permease
ywdK
Uncharacterized small membrane protein

Position: -131
Score: 4.7
Sequence: TGTCAGAAAATCTGCAA
Locus tag: RBAM_034080
Name: rpiB
Funciton: Ribose 5-phosphate isomerase B (EC 5.3.1.6)
Locus tag: RBAM_034070
Name: ywlG
Funciton: Hypothetical protein ywlG
rpiB
Ribose 5-phosphate isomerase B (EC 5.3.1.6)
ywlG
Hypothetical protein ywlG

Position: -78
Score: 4.9
Sequence: TGTGAGATTTTCTTTCA
Locus tag: RBAM_033270
Name: ywrD
Funciton: Gamma-glutamyltranspeptidase (EC 2.3.2.2)
ywrD
Gamma-glutamyltranspeptidase (EC 2.3.2.2)

Position: -64
Score: 4.1
Sequence: TGTCATATCCTCTTACG
Locus tag: RBAM_037500
Name: yycC
Funciton: Hypothetical protein
Locus tag: RBAM_037510
Name: yycA
Funciton: Putative glycosyl transferase
yycC
Hypothetical protein
yycA
Putative glycosyl transferase

Position: -86
Score: 4.4
Sequence: GGTTAGATATTCTCTCA
Position: -63
Score: 3.7
Sequence: TTTCATTATTCATCACA
Locus tag: RBAM_012870
Name: ykgA
Funciton: Arginine deiminase (EC 3.5.3.6)
ykgA
Arginine deiminase (EC 3.5.3.6)

Position: -48
Score: 4.4
Sequence: TATGATAAAATATAACA
Locus tag: RBAM_003080
Name: rapJ
Funciton: Response regulator aspartate phosphatase I (EC 3.1.-.-)
rapJ
Response regulator aspartate phosphatase I (EC 3.1.-.-)

Position: -68
Score: 3.3
Sequence: CTATAGGTTATTTTACA
Locus tag: RBAM_036070
Name: yxkC
Funciton: Hypothetical protein
yxkC
Hypothetical protein

Position: -211
Score: 3.4
Sequence: CTTTAAATTTTATTAAA
Position: -174
Score: 4.9
Sequence: AGTCAGATAATATAACA
Locus tag: RBAM_003840
Name: yclF
Funciton: Di-tripeptide-proton ABC symporter
yclF
Di-tripeptide-proton ABC symporter

Position: -32
Score: 3.9
Sequence: TGTAAGGAAAACGTACA
Locus tag: RBAM_033650
Name: pucI
Funciton: Allantoin permease
pucI
Allantoin permease

Position: -100
Score: 5.4
Sequence: TGTCATATTTTCTTACA
Locus tag: RBAM_006710
Name: gabP
Funciton: Gamma-aminobutyrate (GABA) permease
gabP
Gamma-aminobutyrate (GABA) permease
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