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

Regulon of Fnr in Shewanella woodyi ATCC 51908

Properties
Regulator type: Transcription factor
TF locus tag: Swoo_2417
Regulator family: CRP
Regulation mode:
Biological process: Anaerobic metabolism
Effector: Oxygen
Regulog: Fnr - Shewanellaceae
Statistics of regulated genes:
- Genes 73
- Operons 28
Visualization:
Allows to visualize regulon content in the context of metabolic pathways
Built upon 541 sites [see more]
Member of regulog collections
Regulated operons
Locus Tag Name Function

Position: -77
Score: 4.4
Sequence: TTGATCGAGATCAG
Locus tag: Swoo_4146
Name: Sama_0549
Funciton: Conserved hypothetical protein
Sama_0549
Conserved hypothetical protein

Position: -196
Score: 3.9
Sequence: GTGATCTGCTGCAA
Position: -166
Score: 5.4
Sequence: ATGATCTGGATCAA
Locus tag: Swoo_2635
Name: narK
Funciton: Nitrate/nitrite antiporter
Locus tag: Swoo_2634
Name: narG
Funciton: Respiratory nitrate reductase, alpha chain (EC 1.7.99.4)
Locus tag: Swoo_2633
Name: narH
Funciton: Respiratory nitrate reductase, beta chain (EC 1.7.99.4)
Locus tag: Swoo_2632
Name: narJ
Funciton: Respiratory nitrate reductase, delta chain (EC 1.7.99.4)
Locus tag: Swoo_2631
Name: narI
Funciton: Respiratory nitrate reductase, gamma chain (EC 1.7.99.4)
narK
Nitrate/nitrite antiporter
narG
Respiratory nitrate reductase, alpha chain (EC 1.7.99.4)
narH
Respiratory nitrate reductase, beta chain (EC 1.7.99.4)
narJ
Respiratory nitrate reductase, delta chain (EC 1.7.99.4)
narI
Respiratory nitrate reductase, gamma chain (EC 1.7.99.4)

Position: -334
Score: 4.9
Sequence: TTGATTTGAATCAA
Position: -51
Score: 4.2
Sequence: ATGATGGGGATCTA
Locus tag: Swoo_1565
Name: cydA
Funciton: Cytochrome d ubiquinol oxidase, subunit I (EC 1.10.3.-)
Locus tag: Swoo_1566
Name: cydB
Funciton: Cytochrome d ubiquinol oxidase, subunit II (EC 1.10.3.-)
Locus tag: Swoo_1567
Name: ybgT
Funciton: Cyd operon protein YbgT
cydA
Cytochrome d ubiquinol oxidase, subunit I (EC 1.10.3.-)
cydB
Cytochrome d ubiquinol oxidase, subunit II (EC 1.10.3.-)
ybgT
Cyd operon protein YbgT

Position: -216
Score: 5.6
Sequence: TTGATCTAGATCAA
Position: -173
Score: 4.3
Sequence: TTGACATAGCTCAA
Locus tag: Swoo_2425
Name: ccoN
Funciton: Cytochrome c oxidase, cbb3-type, subunit CcoN (EC 1.9.3.1)
Locus tag: Swoo_2424
Name: ccoO
Funciton: Cytochrome c oxidase, cbb3-type, subunit CcoO (EC 1.9.3.1)
Locus tag: Swoo_2423
Name: ccoQ
Funciton: Cytochrome c oxidase, cbb3-type, subunit CcoQ (EC 1.9.3.1)
Locus tag: Swoo_2422
Name: ccoP
Funciton: Cytochrome c oxidase, cbb3-type, subunit CcoP (EC 1.9.3.1)
Locus tag: Swoo_2421
Name: ccoH
Funciton: Cytochrome c oxidase, cbb3-type, biogenesis protein CcoH
ccoN
Cytochrome c oxidase, cbb3-type, subunit CcoN (EC 1.9.3.1)
ccoO
Cytochrome c oxidase, cbb3-type, subunit CcoO (EC 1.9.3.1)
ccoQ
Cytochrome c oxidase, cbb3-type, subunit CcoQ (EC 1.9.3.1)
ccoP
Cytochrome c oxidase, cbb3-type, subunit CcoP (EC 1.9.3.1)
ccoH
Cytochrome c oxidase, cbb3-type, biogenesis protein CcoH

Position: -16
Score: 4.5
Sequence: TTAAACTAGATCAA
Locus tag: Swoo_2420
Name: ccoI
Funciton: Cytochrome c oxidase, maturation protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4)
Locus tag: Swoo_2419
Name: ccoS
Funciton: Cytochrome c oxidase, maturation protein CcoS, involved in heme b insertion
Locus tag: Swoo_2418
Name: ccoX
Funciton: Cytochrome c oxidase, cbb3-type, predicted component
Locus tag: Swoo_2417
Name: fnr
Funciton: Anaerobic metabolism transcriptional regulator Fnr, Fnr family
ccoI
Cytochrome c oxidase, maturation protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4)
ccoS
Cytochrome c oxidase, maturation protein CcoS, involved in heme b insertion
ccoX
Cytochrome c oxidase, cbb3-type, predicted component
fnr
Anaerobic metabolism transcriptional regulator Fnr, Fnr family

Position: -144
Score: 5.2
Sequence: ATGATCTAGCTCAA
Locus tag: Swoo_4818
Name: SO4504
Funciton: Conserved hypothetical protein
Locus tag: Swoo_4817
Name: SO4505
Funciton: Predicted formate dehydrogenase associated protein
Locus tag: Swoo_4816
Name: SO4506
Funciton: Predicted iron-sulfur cluster-binding protein
Locus tag: Swoo_4815
Name: SO4507
Funciton: Predicted formate dehydrogenase-specific chaperone
Locus tag: Swoo_4814
Name: fdhX
Funciton: Formate dehydrogenase subunit or accessory protein
Locus tag: Swoo_4813
Name: fdhA1
Funciton: Formate dehydrogenase, major subunit (EC 1.2.1.2)
Locus tag: Swoo_4812
Name: fdhB1
Funciton: Formate dehydrogenase, iron-sulfur subunit (EC 1.2.1.2)
Locus tag: Swoo_4811
Name: fdhC1
Funciton: Formate dehydrogenase, gamma subunit
SO4504
Conserved hypothetical protein
SO4505
Predicted formate dehydrogenase associated protein
SO4506
Predicted iron-sulfur cluster-binding protein
SO4507
Predicted formate dehydrogenase-specific chaperone
fdhX
Formate dehydrogenase subunit or accessory protein
fdhA1
Formate dehydrogenase, major subunit (EC 1.2.1.2)
fdhB1
Formate dehydrogenase, iron-sulfur subunit (EC 1.2.1.2)
fdhC1
Formate dehydrogenase, gamma subunit

Position: -131
Score: 4.6
Sequence: TTGCGGTAGATCAA
Locus tag: Swoo_0971
Name: narQ
Funciton: Nitrate/nitrite sensor protein NarQ (EC 2.7.3.-)
Locus tag: Swoo_0970
Name: narP
Funciton: Nitrate/nitrite response regulator protein NarP, LuxR family
narQ
Nitrate/nitrite sensor protein NarQ (EC 2.7.3.-)
narP
Nitrate/nitrite response regulator protein NarP, LuxR family

Position: -127
Score: 4.6
Sequence: TTGATCTACCGCAA
Locus tag: Swoo_0972
Name: nrfA
Funciton: Nitrite reductase, cytochrome c(552) (EC 1.7.2.2)
nrfA
Nitrite reductase, cytochrome c(552) (EC 1.7.2.2)

Position: -78
Score: 4.5
Sequence: TTGTTCCAGATCAA
Locus tag: Swoo_3303
Name: Shew_2655
Funciton: Conserved hypothetical protein
Shew_2655
Conserved hypothetical protein

Position: -70
Score: 4.9
Sequence: TTGATCTAAAGCAA
Locus tag: Swoo_2416
Name: uspE
Funciton: Universal stress protein E
uspE
Universal stress protein E

Position: -85
Score: 5.4
Sequence: TTGATGTAGATCAA
Locus tag: Swoo_3608
Name: bfr2
Funciton: Bacterioferritin
Locus tag: Swoo_3607
Name: bfr1
Funciton: Bacterioferritin
bfr2
Bacterioferritin
bfr1
Bacterioferritin

Position: -154
Score: 4.1
Sequence: GTGAGTTCGATCAA
Position: -104
Score: 5.2
Sequence: TTGATTTGGATCAA
Locus tag: Swoo_3207
Name: ompW
Funciton: Outer membrane protein W precursor
ompW
Outer membrane protein W precursor

Position: -145
Score: 5.3
Sequence: TTGATCTAGCTCAA
Locus tag: Swoo_0710
Name: cydD
Funciton: Transport ATP-binding protein CydD
Locus tag: Swoo_0711
Name: cydC
Funciton: Transport ATP-binding protein CydC
cydD
Transport ATP-binding protein CydD
cydC
Transport ATP-binding protein CydC

Position: -162
Score: 4.5
Sequence: TTGCTCAGGATCAA
Locus tag: Swoo_4794
Name: etfD
Funciton: Electron transfer flavoprotein-ubiquinone oxidoreductase (EC 1.5.5.1)
etfD
Electron transfer flavoprotein-ubiquinone oxidoreductase (EC 1.5.5.1)

Position: -223
Score: 5.1
Sequence: TTGATCCAGATCAT
Locus tag: Swoo_2636
Name: narX
Funciton: Nitrate/nitrite sensor protein NarX (EC 2.7.3.-)
Locus tag: Swoo_2637
Name: narL
Funciton: Nitrate/nitrite response regulator protein NarL, LuxR family
narX
Nitrate/nitrite sensor protein NarX (EC 2.7.3.-)
narL
Nitrate/nitrite response regulator protein NarL, LuxR family

Position: -95
Score: 4.7
Sequence: TTGCGCTAGATCAT
Locus tag: Swoo_2541
Name: pykA
Funciton: Pyruvate kinase (EC 2.7.1.40)
pykA
Pyruvate kinase (EC 2.7.1.40)

Position: -88
Score: 4.9
Sequence: TTGATTTGAATCAA
Locus tag: Swoo_0239
Name: nrfX
Funciton: Nitrite reductase, predicted component
Locus tag: Swoo_0240
Name: nrfB
Funciton: Nitrite reductase, subunit B
Locus tag: Swoo_0241
Name: nrfC
Funciton: Nitrite reductase, 4Fe-4S ferredoxin subunit
Locus tag: Swoo_0242
Name: nrfD
Funciton: Nitrite reductase, cytochrome c subunit
nrfX
Nitrite reductase, predicted component
nrfB
Nitrite reductase, subunit B
nrfC
Nitrite reductase, 4Fe-4S ferredoxin subunit
nrfD
Nitrite reductase, cytochrome c subunit

Position: -151
Score: 4.6
Sequence: TTGATCTTGATCGA
Locus tag: Swoo_4109
Name: napD
Funciton: Periplasmic nitrate reductase component NapD
Locus tag: Swoo_4110
Name: napA
Funciton: Periplasmic nitrate reductase precursor (EC 1.7.99.4)
Locus tag: Swoo_4111
Name: napB
Funciton: Nitrate reductase cytochrome c550-type subunit
napD
Periplasmic nitrate reductase component NapD
napA
Periplasmic nitrate reductase precursor (EC 1.7.99.4)
napB
Nitrate reductase cytochrome c550-type subunit

Position: -187
Score: 4.6
Sequence: TTGATCCTGAGCAA
Locus tag: Swoo_4793
Name: moaA
Funciton: Molybdenum cofactor biosynthesis protein MoaA
Locus tag: Swoo_4792
Name: moaB
Funciton: Molybdenum cofactor biosynthesis protein MoaB
Locus tag: Swoo_4791
Name: moaC
Funciton: Molybdenum cofactor biosynthesis protein MoaC
Locus tag: Swoo_4790
Name: moaD
Funciton: Molybdenum cofactor biosynthesis protein D
Locus tag: Swoo_4789
Name: moaE
Funciton: Molybdenum cofactor biosynthesis protein MoaE
Locus tag: Swoo_4788
Name: modA
Funciton: Molybdenum ABC transporter, substrate-binding protein (TC 3.A.1.8.1)
Locus tag: Swoo_4787
Name: modB
Funciton: Molybdenum ABC transporter, permease protein (TC 3.A.1.8.1)
Locus tag: Swoo_4786
Name: modC
Funciton: Molybdenum ABC transporter, ATP-binding protein (TC 3.A.1.8.1)
moaA
Molybdenum cofactor biosynthesis protein MoaA
moaB
Molybdenum cofactor biosynthesis protein MoaB
moaC
Molybdenum cofactor biosynthesis protein MoaC
moaD
Molybdenum cofactor biosynthesis protein D
moaE
Molybdenum cofactor biosynthesis protein MoaE
modA
Molybdenum ABC transporter, substrate-binding protein (TC 3.A.1.8.1)
modB
Molybdenum ABC transporter, permease protein (TC 3.A.1.8.1)
modC
Molybdenum ABC transporter, ATP-binding protein (TC 3.A.1.8.1)

Position: -337
Score: 4.9
Sequence: GTGATCTTGATCAA
Locus tag: Swoo_0178
Name: coxB
Funciton: Cytochrome c oxidase, polypeptide II (EC 1.9.3.1)
Locus tag: Swoo_0177
Name: coxA
Funciton: Cytochrome c oxidase, polypeptide I (EC 1.9.3.1)
Locus tag: Swoo_0176
Name: coxZ
Funciton: Cytochrome c oxidase biogenesis protein, predicted copper delivery
Locus tag: Swoo_0175
Name: coxC
Funciton: Cytochrome c oxidase, polypeptide III (EC 1.9.3.1)
coxB
Cytochrome c oxidase, polypeptide II (EC 1.9.3.1)
coxA
Cytochrome c oxidase, polypeptide I (EC 1.9.3.1)
coxZ
Cytochrome c oxidase biogenesis protein, predicted copper delivery
coxC
Cytochrome c oxidase, polypeptide III (EC 1.9.3.1)

Position: -159
Score: 5.1
Sequence: TTGAGCTAGATCAT
Locus tag: Swoo_4819
Name: fdhD
Funciton: Formate dehydrogenase chain D (EC 1.2.1.2)
Locus tag: Swoo_4820
Name: SO4502
Funciton: Conserved hupothetical protein
fdhD
Formate dehydrogenase chain D (EC 1.2.1.2)
SO4502
Conserved hupothetical protein

Position: -101
Score: 4.7
Sequence: GTGATCTTGATCAT
Locus tag: Swoo_0566
Name: nifS
Funciton: Cysteine desulfurase (EC 2.8.1.7)
nifS
Cysteine desulfurase (EC 2.8.1.7)

Position: -135
Score: 4.3
Sequence: GTGATCTGATTCAA
Locus tag: Swoo_0285
Name: acnB
Funciton: Aconitate hydratase 2 (EC 4.2.1.3) / 2-methylisocitrate dehydratase (EC 4.2.1.99)
acnB
Aconitate hydratase 2 (EC 4.2.1.3) / 2-methylisocitrate dehydratase (EC 4.2.1.99)

Position: -121
Score: 4.7
Sequence: TTGATCTGTCTCAA
Locus tag: Swoo_1260
Name: hcp
Funciton: Hydroxylamine reductase (EC 1.7.-.-)
Locus tag: Swoo_1261
Name: hcr
Funciton: HCP oxidoreductase, NADH-dependent
hcp
Hydroxylamine reductase (EC 1.7.-.-)
hcr
HCP oxidoreductase, NADH-dependent

Position: -163
Score: 4.6
Sequence: TCGATGTGGATCAA
Locus tag: Swoo_2688
Name: Sama_1615
Funciton: Predicted exported protein
Sama_1615
Predicted exported protein

Position: -122
Score: 4.8
Sequence: ATGATCAGGATCAA
Locus tag: Swoo_3049
Name: nrdD
Funciton: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2)
Locus tag: Swoo_3048
Name: nrdG
Funciton: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4)
nrdD
Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2)
nrdG
Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4)

Position: -226
Score: 4.8
Sequence: TTGATGTAGGTCAA
Locus tag: Swoo_4155
Name: SO0579
Funciton: Predicted serine/threonine protein kinase
SO0579
Predicted serine/threonine protein kinase

Position: -134
Score: 4.4
Sequence: GTGATGTGGTTCAA
Locus tag: Swoo_0507
Name: frdC2
Funciton: Fumarate reductase, cytochrome b subunit
Locus tag: Swoo_0508
Name: frdC1
Funciton: Fumarate reductase, cytochrome b subunit
Locus tag: Swoo_0509
Name: frdA
Funciton: Fumarate reductase, flavoprotein subunit
Locus tag: Swoo_0510
Name: frdB
Funciton: Fumarate reductase, iron-sulfur protein (EC 1.3.99.1)
frdC2
Fumarate reductase, cytochrome b subunit
frdC1
Fumarate reductase, cytochrome b subunit
frdA
Fumarate reductase, flavoprotein subunit
frdB
Fumarate reductase, iron-sulfur protein (EC 1.3.99.1)
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