RegulonDB RegulonDB 10.8: Regulon Form
   
   


Fis regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
Fis Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class TFs for DNA-bending
Synonym(s): DNA-binding transcriptional dual regulator Fis, Nbp, site-specific DNA inversion stimulation factor
Gene name(s): fis
Functional conformation(s): Fis
Coregulator(s): AcrR, AdiY, AppY, ArcA, ArgP, BasR, CRP, CpxR, Cra, CreB, CspA, CusR, CytR, DeoR, DksA, DksA-ppGpp, DnaA, FNR, FadR, Fis, FlhDC, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GlcC, GlpR, H-NS, HprR, IHF, IscR, LeuO, Lrp, MalT, MarA, MarR, MazE, MazE-MazF, Mlc, MntR, ModE, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PepA, PurR, RcsB, RcsB-BglJ, Rob, RstA, RutR, SlyA, SoxS, StpA, TorR, XylR, YdeO, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY Fis Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
Fis activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
Fis activator nuoAp1 nuoN , nuoM , nuoL , nuoK , nuoJ , nuoI , nuoH , nuoG , nuoF , nuoE , nuoC , nuoB , nuoA 2405563 2405577 -235.5 tacaaaactgTTCATTTTTCAACCAccagagattc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[1]
[2]
Fis activator nuoAp1 nuoN , nuoM , nuoL , nuoK , nuoJ , nuoI , nuoH , nuoG , nuoF , nuoE , nuoC , nuoB , nuoA 2405526 2405540 -198.5 gtcccgaacgCACAAATAATCGCCTgaaaaaaatc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[1]
[2]
Fis activator nuoAp1 nuoN , nuoM , nuoL , nuoK , nuoJ , nuoI , nuoH , nuoG , nuoF , nuoE , nuoC , nuoB , nuoA 2405466 2405480 -138.5 acgtaaatttGTTGCTGCGTTTTTGttatggaatg [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[1]
[2]
Fis activator metYp1 pnp , rpsO , truB , rbfA , infB , nusA , rimP , metY 3318365 3318379 -75.0 actataatgcCTGCAGATTTTACGTcccgtctcgg [BCE]
[IHBCE]
[3]
Fis activator trmAp trmA 4163335 4163349 -47.0 gtagctcacaAATAGGAATTCATCAagatctggac [APIORCISFBSCS] [4]
Fis activator pheUp pheU 4362694 4362708 -74.0 agaagcgattTGCCGCAATCTTAAGcagttgaatc [IHBCE] [3]
Fis activator leuQp leuV , leuP , leuQ 4606498 4606512 -73.0 gtttcctgatGGACATTTTTCCAGCaattacacct [APIORCISFBSCS]
[BCE]
[CV(GEA/ROMA)]
[GEA]
[IHBCE]
[5]
[3]
Fis activator serTp serT 1031772 1031786 -60.0 atgcacttttGGCTGTTTTTCAGGCaaacaaacaa [IHBCE] [3]
Fis activator serXp serX 1097744 1097758 -75.0 aaccacacatTGATTGAAGTTTGAAtaaacgcgcg [BCE]  
Fis activator alaWp alaX , alaW 2518322 2518336 -76.0 attgttcattTGCCTGATTTTTCAGcgattgaaac [BCE]  
Fis activator glyUp glyU 2999124 2999138 -67.0 gccaaaatgcTGATGGCGAATTAATcagcagtcag [BCE]  
Fis activator aspVp aspV 236830 236844 -76.0 aatagcgactTGGGCGATTTTTGCAgcaaacgatt [BCE]  
Fis activator thrWp thrW 262768 262782 -66.0 taaaaccgggTGATGCAAAAGTAGCcatttgattc [BCE]  
Fis activator argUp argU 564631 564645 -65.0 cagacgcggtCGTTCACTTGTTCAGcaaccagatc [IHBCE]  
Fis activator proKp proK 3708763 3708777 -76.0 ctaagcggccTGCTGACTTTCTCGCcgatcaaaag [BCE]  
Fis activator argWp argW 2466227 2466241 -74.0 ataaaaacccGGCATAAATGGCGAGggtttaagca [BCE]  
Fis activator pheVp pheV 3110283 3110297 -75.0 tatcggcaaaGTGATGATAGATTGTgcagtctgca [BCE]  
Fis activator lysTp lysT , valT , lysW 780433 780447 -74.0 tggtcgtgtcGTGCGAATCATAAGCagttgagtga [IHBCE] [3]
Fis activator proLp proL 2286134 2286148 -66.0 tatcgctaacTGATTAATTATAAATcagttagcga [BCE]  
Fis activator flxAp flxA 1646309 1646323 -72.0 agcccgcgagGAAAACAATCTGAACatcaaacaat [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[6]
Fis activator valUp valU , valX , valY , lysV 2520844 2520858 -73.0 cgatcatcttGCTTAAATTTACGACgaacgaacaa [AIBSCS]
[BCE]
[BPP]
[CV(CHIP-SV/SM)]
[SM]
[7]
Fis activator pdxAp apaH , apaG , rsmA , pdxA         [GEA] [8]
Fis activator valUp valU , valX , valY , lysV 2520803 2520817 -114.0 tattgttttcGTTGACAAATTGCGCaacacggtct [AIBSCS]
[BPP]
[CV(CHIP-SV/SM)]
[SM]
[7]
Fis activator valUp valU , valX , valY , lysV 2520824 2520838 -93.0 gcgcaacacgGTCTGTTTTGCGATCatcttgctta [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/SM)]
[SM]
[7]
Fis repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
Fis repressor hupBp2 hupB 461180 461194 -208.0 gcgcattgagGAAGTTCTGACTCTGgcgctgcaaa [BPP]
[GEA]
[9]
Fis repressor hupBp2 hupB 461203 461217 -185.0 tggcgctgcaAAATGAACCGTCTGGtatgcaggtt [BPP]
[GEA]
[9]
Fis repressor hupBp2 hupB 461235 461249 -152.5 gttgtgactgCAAAATAGTGACCTCgcgcaaaatg [BPP]
[GEA]
[9]
Fis repressor hupBp2 hupB 461465 461479 78.0 ataaatctcaATTGATCGACAAGATtgctgcaggg [BPP]
[GEA]
[9]
Fis repressor crpp3 crp 3485854 3485868 -164.0 tcctgacagaGTACGCGTACTAACCaaatcgcgca [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[10]
Fis repressor crpp3 crp 3485975 3485989 -43.0 atacattgatGTACTGCATGTATGCaaaggacgtc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[10]
Fis repressor crpp3 crp 3485993 3486007 -25.0 tgtatgcaaaGGACGTCACATTACCgtgcagtaca [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[10]
Fis repressor crpp3 crp 3486013 3486027 -5.0 ttaccgtgcaGTACAGTTGATAGCCccttcccagg [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[10]
Fis repressor gyrBp gyrB 3880252 3880266 -109.0 cttgccagccGCTTAAAAGCGACGCaatcacaggt [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[11]
[12]
Fis repressor gyrBp gyrB 3880205 3880219 -62.0 gatcagtgctGAACACGTTATAGACatgtcggacg [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[11]
[12]
Fis repressor topAp4 topA 1330717 1330731 -94.0 catggcttgcAGACAAATATACCACgctggtggca [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis repressor topAp4 topA 1330743 1330757 -68.0 ctggtggcaaGAGCGCCTTACTGGCaactttggat [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis repressor topAp4 topA 1330774 1330788 -37.0 ggattttgcaTGCTAATAAAGTTGCgtatcggatt [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis repressor topAp4 topA 1330795 1330809 -16.0 ttgcgtatcgGATTTTATCAGGTACagtgtgacgc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis repressor topAp4 topA 1330816 1330830 6.0 gtacagtgtgACGCTTTCGTCAATCtggcaataga [BPP]
[GEA]
[13]
Fis repressor ansBp1 ansB 3100852 3100866 -69.0 tttttatgccGTTTAATTCTTCGTTttgttacctg [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[6]
Fis repressor ansBp1 ansB 3100810 3100824 -27.0 ctttgtagatCTCCAAAATATATTCacgttgtaaa [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[6]
Fis repressor msrAp msrA 4442292 4442311 -40.0 atccagtaatATGGATTAAAAAGCAGACTAaaccccaaat [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[6]
Fis repressor msrAp msrA 4442256 4442275 -4.0 aaatatttctTATGTTTTACTTTAGACCTAttcacggtgg [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[6]
Fis repressor pflBp1 pflB 953574 953588 -2.0 agtacgcagtAAATAAAAAATCCACttaagaaggt [AIBSCS]
[CV(GEA/ROMA)]
[GEA]
[6]
Fis repressor cbpAp4 cbpM , cbpA 1063927 1063941 -15.0 tttttcacctGTTTAAAATATGTTCagcaacccat   [14]
Fis repressor cbpAp6 cbpM , cbpA 1063927 1063941 104.0 tttttcacctGTTTAAAATATGTTCagcaacccat [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(CHIP-SV/SM)]
[CV(GEA/ROMA)]
[CV(GEA/ROMA/SM)]
[GEA]
[SM]
[14]
Fis repressor mglAp mglC , mglA         [GEA] [15]
Fis repressor glnQp glnQ         [GEA] [15]
Fis repressor gltXp3 gltX 2520844 2520858 -121.0 ttgttcgttcGTCGTAAATTTAAGCaagatgatcg [AIBSCS]
[BCE]
[BPP]
[CV(CHIP-SV/SM)]
[SM]
[7]
Fis repressor gltXp3 gltX 2520824 2520838 -101.0 taagcaagatGATCGCAAAACAGACcgtgttgcgc [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/SM)]
[SM]
[7]
Fis repressor gltXp3 gltX 2520803 2520817 -80.0 agaccgtgttGCGCAATTTGTCAACgaaaacaata [AIBSCS]
[BPP]
[CV(CHIP-SV/SM)]
[SM]
[7]
Fis dual    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
Fis activator rnpBp rnpB 3270635 3270649 -50.0 cgacactggcGATTGGAATGCGCAAcgcggggtga [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[16]
Fis activator rnpBp rnpB 3270703 3270717 -118.0 aggtacgttgGACGAAGCATTCCGCggggcttatg [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[16]
Fis activator rnpBp rnpB 3270741 3270755 -156.0 catggcattgATGCGGTCTTCAGCGtattgaccag [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[16]
Fis repressor rnpBp rnpB 3270575 3270589 11.0 gcgcgccgaaGCTGACCAGACAGTCgccgcttcgt [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[16]
Fis activator topAp1 topA 1330717 1330731 -256.0 catggcttgcAGACAAATATACCACgctggtggca [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis activator topAp1 topA 1330743 1330757 -230.0 ctggtggcaaGAGCGCCTTACTGGCaactttggat [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis activator topAp1 topA 1330774 1330788 -199.0 ggattttgcaTGCTAATAAAGTTGCgtatcggatt [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis activator topAp1 topA 1330795 1330809 -178.0 ttgcgtatcgGATTTTATCAGGTACagtgtgacgc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis activator topAp1 topA 1330816 1330830 -157.0 gtacagtgtgACGCTTTCGTCAATCtggcaataga [BPP]
[GEA]
[13]
Fis activator topAp1 topA 1330844 1330858 -129.0 caatagatttGCTTGACATTCGACCaaaattccgt [AIBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
[17]
Fis activator topAp1 topA 1330879 1330893 -94.0 cgtgctatagCGCCTGTAGGCCAAGacctgttaac [AIBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
[17]
Fis activator topAp1 topA 1330911 1330925 -62.0 aactcagtcaCCTGAATTTTCGTGAacagagtcac [AIBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
[17]
Fis repressor topAp1 topA 1330992 1331006 20.0 gttgccagtgGAAGGTTTATCAACGtgcgacgcat [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis repressor topAp1 topA 1330963 1330977 -10.0 cgcagagagcGAGTCCATATCGGTAactcgttgcc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]
Fis repressor topAp1 topA 1330943 1330957 -30.0 cacgacaaggGGTTGATATCCGCAGagagcgagtc [APIORCISFBSCS]
[BPP]
[CV(CHIP-SV/GEA/ROMA)]
[CV(GEA/ROMA)]
[GEA]
[13]

Evidence: [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
[BPP] Binding of purified proteins
[CV(CHIP-SV/GEA/ROMA)] cross validation(CHIP-SV/GEA/ROMA)
[CV(GEA/ROMA)] cross validation(GEA/ROMA)
[GEA] Gene expression analysis
[BCE] Binding of cellular extracts
[IHBCE] Inferred by a human based on computational evidence
[AIBSCS] Automated inference based on similarity to consensus sequences
[CV(CHIP-SV/SM)] cross validation(CHIP-SV/SM)
[SM] Site mutation
[CV(GEA/ROMA/SM)] cross validation(GEA/ROMA/SM)
Reference(s): [1] Wackwitz B., et al., 1999
[2] Zhang J., et al., 2004
[3] Verbeek H., et al., 1990
[4] Gustafsson C., et al., 1991
[5] Ross W., et al., 1999
[6] Bradley MD., et al., 2007
[7] Champagne N., et al., 1998
[8] Pease AJ., et al., 2002
[9] Claret L., et al., 1996
[10] Gonzalez-Gil G., et al., 1998
[11] Cameron AD., et al., 2011
[12] Schneider R., et al., 1999
[13] Weinstein-Fischer D., et al., 2007
[14] Chintakayala K., et al., 2013
[15] Xu J., et al., 1995
[16] Choi HS., et al., 2005
[17] Weinstein-Fischer D., et al., 2000



Reference(s)    

 [1] Wackwitz B., Bongaerts J., Goodman SD., Unden G., 1999, Growth phase-dependent regulation of nuoA-N expression in Escherichia coli K-12 by the Fis protein: upstream binding sites and bioenergetic significance., Mol Gen Genet 262(4-5):876-83

 [2] Zhang J., Zeuner Y., Kleefeld A., Unden G., Janshoff A., 2004, Multiple site-specific binding of Fis protein to Escherichia coli nuoA-N promoter DNA and its impact on DNA topology visualised by means of scanning force microscopy., Chembiochem 5(9):1286-9

 [3] Verbeek H., Nilsson L., Baliko G., Bosch L., 1990, Potential binding sites of the trans-activator FIS are present upstream of all rRNA operons and of many but not all tRNA operons., Biochim Biophys Acta 1050(1-3):302-6

 [4] Gustafsson C., Lindstrom PH., Hagervall TG., Esberg KB., Bjork GR., 1991, The trmA promoter has regulatory features and sequence elements in common with the rRNA P1 promoter family of Escherichia coli., J Bacteriol 173(5):1757-64

 [5] Ross W., Salomon J., Holmes WM., Gourse RL., 1999, Activation of Escherichia coli leuV transcription by FIS., J Bacteriol 181(12):3864-8

 [6] Bradley MD., Beach MB., de Koning AP., Pratt TS., Osuna R., 2007, Effects of Fis on Escherichia coli gene expression during different growth stages., Microbiology 153(Pt 9):2922-40

 [7] Champagne N., Lapointe J., 1998, Influence of FIS on the transcription from closely spaced and non-overlapping divergent promoters for an aminoacyl-tRNA synthetase gene (gltX) and a tRNA operon (valU) in Escherichia coli., Mol Microbiol 27(6):1141-56

 [8] Pease AJ., Roa BR., Luo W., Winkler ME., 2002, Positive growth rate-dependent regulation of the pdxA, ksgA, and pdxB genes of Escherichia coli K-12., J Bacteriol 184(5):1359-69

 [9] Claret L., Rouviere-Yaniv J., 1996, Regulation of HU alpha and HU beta by CRP and FIS in Escherichia coli., J Mol Biol 263(2):126-39

 [10] Gonzalez-Gil G., Kahmann R., Muskhelishvili G., 1998, Regulation of crp transcription by oscillation between distinct nucleoprotein complexes., EMBO J 17(10):2877-85

 [11] Cameron AD., Stoebel DM., Dorman CJ., 2011, DNA supercoiling is differentially regulated by environmental factors and FIS in Escherichia coli and Salmonella enterica., Mol Microbiol 80(1):85-101

 [12] Schneider R., Travers A., Kutateladze T., Muskhelishvili G., 1999, A DNA architectural protein couples cellular physiology and DNA topology in Escherichia coli., Mol Microbiol 34(5):953-64

 [13] Weinstein-Fischer D., Altuvia S., 2007, Differential regulation of Escherichia coli topoisomerase I by Fis., Mol Microbiol 63(4):1131-44

 [14] Chintakayala K., Singh SS., Rossiter AE., Shahapure R., Dame RT., Grainger DC., 2013, E. coli Fis protein insulates the cbpA gene from uncontrolled transcription., PLoS Genet 9(1):e1003152

 [15] Xu J., Johnson RC., 1995, Identification of genes negatively regulated by Fis: Fis and RpoS comodulate growth-phase-dependent gene expression in Escherichia coli., J Bacteriol 177(4):938-47

 [16] Choi HS., Kim KS., Park JW., Jung YH., Lee Y., 2005, Effects of FIS protein on rnpB transcription in Escherichia coli., Mol Cells 19(2):239-45

 [17] Weinstein-Fischer D., Elgrably-Weiss M., Altuvia S., 2000, Escherichia coli response to hydrogen peroxide: a role for DNA supercoiling, topoisomerase I and Fis., Mol Microbiol 35(6):1413-20


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