RegulonDB RegulonDB 10.8: Regulon Form
   
   


LexA regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
LexA Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional repressor LexA, ExrA, Spr, Tsl, UmuA
Gene name(s): lexA
Functional conformation(s): LexA
Coregulator(s): ArcA, CRP, DinJ-YafQ, DnaA, LexA, NagC, RcdA, RcsB-BglJ, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY LexA Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
LexA repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
LexA repressor lexAp lexA , dinF 4257027 4257046 -50.5 ttcgataaatCTCTGGTTTATTGTGCAGTTtatggttcca [APIORCISFBSCS] [1]
[2]
LexA repressor lexAp lexA , dinF 4257068 4257087 -9.0 aatcgcctttTGCTGTATATACTCACAGCAtaactgtata [APIORCISFBSCS]
[BPP]
[3]
[2]
LexA repressor lexAp lexA , dinF 4257089 4257108 13.0 ctcacagcatAACTGTATATACACCCAGGGggcggaatga [APIORCISFBSCS]
[BPP]
[3]
[2]
LexA repressor phrp phr 739345 739364 -66.5 gccagcagctGGCTGCGCTTATCGACAGTTatcgccgtgg [APIORCISFBSCS] [1]
[4]
LexA repressor phrp phr 739436 739455 25.5 ttatcctgacGCCTGGCTTTCAGGGCAGCGttatttcgaa [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[5]
LexA repressor rpsUp3 rpsU , dnaG , rpoD 3210729 3210748 4.5 attttgaaatAAGCTGGCGTTGATGCCAGCggcaaaccga [BCE]
[SM]
[6]
[7]
LexA repressor recAp recX , recA 2823829 2823848 -20.0 aaacacttgaTACTGTATGAGCATACAGTAtaattgcttc [BPP] [3]
[2]
LexA repressor uvrDp1 uvrD 3997907 3997926 11.0 taatcagcaaATCTGTATATATACCCAGCTttttggcgga [APIORCISFBSCS] [8]
LexA repressor umuDp umuD , umuC 1230728 1230747 -0.5 aagaacagacTACTGTATATAAAAACAGTAtaacttcagg [BPP] [9]
[1]
LexA repressor umuDp umuD , umuC 1230708 1230727 -20.5 atcagtattgATCTGCTGGCAAGAACAGACtactgtatat [APIORCISFBSCS] [9]
[1]
[10]
LexA repressor polBp polB 65834 65853 -40.5 gggcagtaatGACTGTATAAAACCACAGCCaatcaaacga [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[1]
[11]
LexA repressor ruvAp1 ruvB , ruvA 1946078 1946097 -63.5 aataaattatACTGTGCCATTTTTCAGTTCatcgagacac [APIORCISFBSCS] [12]
[1]
LexA repressor ruvAp1 ruvB , ruvA 1946027 1946046 -12.5 tcttcatcctTCGCTGGATATCTATCCAGCatttttttat [APIORCISFBSCS]
[BPP]
[12]
[13]
[1]
[14]
LexA repressor ruvAp2 ruvB , ruvA 1946079 1946098 -72.5 gaataaattaTACTGTGCCATTTTTCAGTTcatcgagaca [APIORCISFBSCS] [12]
[1]
LexA repressor ruvAp2 ruvB , ruvA 1946026 1946045 -19.5 cttcatccttCGCTGGATATCTATCCAGCAtttttttatc [APIORCISFBSCS]
[BPP]
[12]
[13]
[1]
[14]
LexA repressor dinGp dinG , ybiB 833036 833055 -27.5 aatgccacaaTATTGGCTGTTTATACAGTAtttcaggttt [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[11]
[15]
LexA repressor tisBp tisB 3853299 3853318 -28.0 gtccaaatatTACTGTTTATTTATACAGTAaacttctata [CV(GEA)]
[GEA]
[ICA]
[13]
[16]
LexA repressor ydjMp ydjM 1810177 1810196 17.5 aaaaatcctaTACTGTACGTATCGACAGTTtagtgagttt [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[13]
LexA repressor symEp symE 4579916 4579935 -8.5 tccccatattTACTGATGATATATACAGGTatttagcgcg [AIBSCS]
[BPP]
[13]
[1]
LexA repressor ydjMp ydjM 1810159 1810178 -1.5 cacttccgtgCACTGTATAAAAATCCTATActgtacgtat [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[13]
LexA repressor dinQp dinQ 3647980 3647999 -7.5 aacctgcatgTACTGTATGATTATCCAGTTagctctgagg [AIBSCS]
[APIORCISFBSCS]
[CV(GEA)]
[GEA]
[13]
[17]
LexA repressor dinBp dinB , yafN , yafO , yafP 250864 250883 -6.5 accctgaaatCACTGTATACTTTACCAGTGttgagaggtg [AIBSCS]
[APIORCISFBSCS]
[ICWHO]
[13]
[18]
[19]
[20]
[21]
LexA repressor yafNp yafN , yafO , yafP 251958 251977 -1.5 ttatgatgtaTACTATTATGTATATTCTGGtgtgcattat [APIORCISFBSCS] [22]
LexA repressor ftsLp2 ftsL , ftsI , murE , murF , mraY , murD , ftsW , murG , murC , ddlB , ftsQ , ftsA , ftsZ , lpxC 91004 91023 3.0 cgtagttcagTTCTGCGTATTGCAGAGAGGacgaatgcat [APIORCISFBSCS] [23]
[24]
LexA repressor dinDp dinD 3817697 3817716 8.5 agatactcacAACTGTATATAAATACAGTTacagatttac [AIBSCS]
[APIORCISFBSCS]
[CV(GEA)]
[GEA]
[13]
[19]
[1]
[25]
[21]
LexA repressor yebGp yebG 1930765 1930784 -9.5 aaaagaaataTACTGTATAAAATCACAGTTattatgagag [AIBSCS]
[APIORCISFBSCS]
[CV(GEA)]
[GEA]
[IHBCE]
[13]
[19]
[26]
[21]
LexA repressor hokEp hokE 607640 607659 -81.5 aaacaggactCACTGTATAAATAAACAGCTattttgttga [AIBSCS] [18]
LexA repressor chop cho 1823482 1823501 -0.5 ccgcctgttaCACTGGATAGATAACCAGCAttcggagtca [AIBSCS]
[APIORCISFBSCS]
[13]
[18]
[19]
[21]
LexA repressor ybfEp ybfE 712015 712034 -85.5 tgattaacgcAACTGATTAAAAACCCAGCGtccgcgtcgc [AIBSCS] [18]
LexA repressor uvrYp2 uvrC , uvrY 1995526 1995545 -129.5 tcgtagggctTACTGTGAAACGATCCGGTAagccgttggt [AIBSCS]
[CV(GEA)]
[GEA]
[27]
LexA repressor dinQp dinQ 3648002 3648021 -29.5 tgcaaggacgTGCTGGTTTTATAACCTGCAtgtactgtat [APIORCISFBSCS] [17]
LexA repressor ptrAp recD , recB , ptrA 2958982 2959001 20.5 ccagtcacggACTGATGGTTATATAAACATaggctgactc [BPP]
[CV(SM)]
[SM]
[21]
LexA repressor uvrCp3 uvrC         [GEA] [27]
LexA repressor insKp insK         [AIBSCS]
[CV(GEA)]
[GEA]
[13]
LexA repressor recQp recQ 4005834 4005849 6.0 aaaatagcgcCTGTTTTTATTTCAGGcaatcggggt [APIORCISFBSCS]
[CV(GEA)]
[GEA]
[28]
LexA repressor uvrBp1 uvrB 813434 813450 -51.5 tggtgatgaaCTGTTTTTTTATCCAGTataatttgtt [APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[ICA]
[SM]
[29]
[30]
[31]

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(GEA)] cross validation(GEA)
[GEA] Gene expression analysis
[BCE] Binding of cellular extracts
[SM] Site mutation
[AIBSCS] Automated inference based on similarity to consensus sequences
[ICA] Inferred by computational analysis
[ICWHO] Inferred computationally without human oversight
[IHBCE] Inferred by a human based on computational evidence
[CV(SM)] cross validation(SM)
[CV(GEA/SM)] cross validation(GEA/SM)
Reference(s): [1] Lewis LK., et al., 1994
[2] Little JW., et al., 1981
[3] Brent R., et al., 1981
[4] Payne NS., et al., 1989
[5] Ma C., et al., 1995
[6] Lupski JR., et al., 1984
[7] Lupski JR., et al., 1983
[8] Easton AM., et al., 1983
[9] Kitagawa Y., et al., 1985
[10] Otsuka J., et al., 1996
[11] Lewis LK., et al., 1992
[12] Benson FE., et al., 1988
[13] Fernandez De Henestrosa AR., et al., 2000
[14] Shinagawa H., et al., 1988
[15] Lewis LK., et al., 1992
[16] Vogel J., et al., 2004
[17] Weel-Sneve R., et al., 2013
[18] Gillor O., et al., 2008
[19] Kaleta C., et al., 2010
[20] Ohmori H., et al., 1995
[21] Wade JT., et al., 2005
[22] Christensen-Dalsgaard M., et al., 2010
[23] Ishino F., et al., 1989
[24] Vicente M., et al., 1998
[25] Ohmori H., et al., 1995
[26] Lomba MR., et al., 1997
[27] Stark T., et al., 1989
[28] Irino N., et al., 1986
[29] Nissenson RA., et al., 1985
[30] Sancar GB., et al., 1982
[31] Wurihan., et al., 2018



Reference(s)    

 [1] Lewis LK., Harlow GR., Gregg-Jolly LA., Mount DW., 1994, Identification of high affinity binding sites for LexA which define new DNA damage-inducible genes in Escherichia coli., J Mol Biol 241(4):507-23

 [2] Little JW., Mount DW., Yanisch-Perron CR., 1981, Purified lexA protein is a repressor of the recA and lexA genes., Proc Natl Acad Sci U S A 78(7):4199-203

 [3] Brent R., Ptashne M., 1981, Mechanism of action of the lexA gene product., Proc Natl Acad Sci U S A 78(7):4204-8

 [4] Payne NS., Sancar A., 1989, The LexA protein does not bind specifically to the two SOS box-like sequences immediately 5' to the phr gene., Mutat Res 218(3):207-10

 [5] Ma C., Rupert CS., 1995, Promoters of the phr gene in Escherichia coli K-12., Mol Gen Genet 248(1):52-8

 [6] Lupski JR., Ruiz AA., Godson GN., 1984, Promotion, termination, and anti-termination in the rpsU-dnaG-rpoD macromolecular synthesis operon of E. coli K-12., Mol Gen Genet 195(3):391-401

 [7] Lupski JR., Smiley BL., Godson GN., 1983, Regulation of the rpsU-dnaG-rpoD macromolecular synthesis operon and the initiation of DNA replication in Escherichia coli K-12., Mol Gen Genet 189(1):48-57

 [8] Easton AM., Kushner SR., 1983, Transcription of the uvrD gene of Escherichia coli is controlled by the lexA repressor and by attenuation., Nucleic Acids Res 11(24):8625-40

 [9] Kitagawa Y., Akaboshi E., Shinagawa H., Horii T., Ogawa H., Kato T., 1985, Structural analysis of the umu operon required for inducible mutagenesis in Escherichia coli., Proc Natl Acad Sci U S A 82(13):4336-40

 [10] Otsuka J., Watanabe H., Mori KT., 1996, Evolution of transcriptional regulation system through promiscuous coupling of regulatory proteins with operons; suggestion from protein sequence similarities in Escherichia coli., J Theor Biol 178(2):183-204

 [11] Lewis LK., Jenkins ME., Mount DW., 1992, Isolation of DNA damage-inducible promoters in Escherichia coli: regulation of polB (dinA), dinG, and dinH by LexA repressor., J Bacteriol 174(10):3377-85

 [12] Benson FE., Illing GT., Sharples GJ., Lloyd RG., 1988, Nucleotide sequencing of the ruv region of Escherichia coli K-12 reveals a LexA regulated operon encoding two genes., Nucleic Acids Res 16(4):1541-9

 [13] Fernandez De Henestrosa AR., Ogi T., Aoyagi S., Chafin D., Hayes JJ., Ohmori H., Woodgate R., 2000, Identification of additional genes belonging to the LexA regulon in Escherichia coli., Mol Microbiol 35(6):1560-72

 [14] Shinagawa H., Makino K., Amemura M., Kimura S., Iwasaki H., Nakata A., 1988, Structure and regulation of the Escherichia coli ruv operon involved in DNA repair and recombination., J Bacteriol 170(9):4322-9

 [15] Lewis LK., Mount DW., 1992, Interaction of LexA repressor with the asymmetric dinG operator and complete nucleotide sequence of the gene., J Bacteriol 174(15):5110-6

 [16] Vogel J., Argaman L., Wagner EG., Altuvia S., 2004, The small RNA IstR inhibits synthesis of an SOS-induced toxic peptide., Curr Biol 14(24):2271-6

 [17] Weel-Sneve R., Kristiansen KI., Odsbu I., Dalhus B., Booth J., Rognes T., Skarstad K., Bjoras M., 2013, Single Transmembrane Peptide DinQ Modulates Membrane-Dependent Activities., PLoS Genet 9(2):e1003260

 [18] Gillor O., Vriezen JA., Riley MA., 2008, The role of SOS boxes in enteric bacteriocin regulation., Microbiology 154(Pt 6):1783-92

 [19] Kaleta C., Gohler A., Schuster S., Jahreis K., Guthke R., Nikolajewa S., 2010, Integrative inference of gene-regulatory networks in Escherichia coli using information theoretic concepts and sequence analysis., BMC Syst Biol 4:116

 [20] Ohmori H., Hatada E., Qiao Y., Tsuji M., Fukuda R., 1995, dinP, a new gene in Escherichia coli, whose product shows similarities to UmuC and its homologues., Mutat Res 347(1):1-7

 [21] Wade JT., Reppas NB., Church GM., Struhl K., 2005, Genomic analysis of LexA binding reveals the permissive nature of the Escherichia coli genome and identifies unconventional target sites., Genes Dev 19(21):2619-30

 [22] Christensen-Dalsgaard M., Jorgensen MG., Gerdes K., 2010, Three new RelE-homologous mRNA interferases of Escherichia coli differentially induced by environmental stresses., Mol Microbiol 75(2):333-48

 [23] Ishino F., Jung HK., Ikeda M., Doi M., Wachi M., Matsuhashi M., 1989, New mutations fts-36, lts-33, and ftsW clustered in the mra region of the Escherichia coli chromosome induce thermosensitive cell growth and division., J Bacteriol 171(10):5523-30

 [24] Vicente M., Gomez MJ., Ayala JA., 1998, Regulation of transcription of cell division genes in the Escherichia coli dcw cluster., Cell Mol Life Sci 54(4):317-24

 [25] Ohmori H., Saito M., Yasuda T., Nagata T., Fujii T., Wachi M., Nagai K., 1995, The pcsA gene is identical to dinD in Escherichia coli., J Bacteriol 177(1):156-65

 [26] Lomba MR., Vasconcelos AT., Pacheco AB., de Almeida DF., 1997, Identification of yebG as a DNA damage-inducible Escherichia coli gene., FEMS Microbiol Lett 156(1):119-22

 [27] Stark T., Moses RE., 1989, Interaction of the LexA repressor and the uvrC regulatory region., FEBS Lett 258(1):39-41

 [28] Irino N., Nakayama K., Nakayama H., 1986, The recQ gene of Escherichia coli K12: primary structure and evidence for SOS regulation., Mol Gen Genet 205(2):298-304

 [29] Nissenson RA., Strewler GJ., Williams RD., Leung SC., 1985, Activation of the parathyroid hormone receptor-adenylate cyclase system in osteosarcoma cells by a human renal carcinoma factor., Cancer Res 45(11 Pt 1):5358-63

 [30] Sancar GB., Sancar A., Little JW., Rupp WD., 1982, The uvrB gene of Escherichia coli has both lexA-repressed and lexA-independent promoters., Cell 28(3):523-30

 [31] Wurihan., Gezi., Brambilla E., Wang S., Sun H., Fan L., Shi Y., Sclavi B., Morigen., 2018, DnaA and LexA Proteins Regulate Transcription of the uvrB Gene in Escherichia coli: The Role of DnaA in the Control of the SOS Regulon., Front Microbiol 9:1212


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