RegulonDB RegulonDB 10.8: Sigmulon Form
   

Sigma24 Sigmulon in Escherichia coli K-12 genome




Sigma24 Signal transduction, see details.


SUMMARY: In the absence of stress, the sigma factor σ24 is complexed with RssA and RssB in the inner membrane, but under envelope stress, misfolded proteins and lipoproteins appear in the periplasm. The lipoproteins release RssB from the complex RssB-rseA-σ24, and then a proteolytic cascade starts when DegS, bound to unfolded proteins, partially degrades the RseA protein in the RseA-σ24 complex, producing the RseA-1-108 polypeptide that is cleaved by RseP, and the complex is released from the inner membrane. In the cytoplasm, HslUV or Lon can degrade RseA, releasing σ24, which can bind to core RNA polymerase to activate transcription of genes for maintaining cell envelope integrity. Another protease that also degrades RseA in the cytoplasm is ClpXP, but the protein SspB has to be bound to the RseA-1-108-RpoE complex. On the other hand, the rpoE gene, which forms part of the rpoE-rseAB operon, is induced by the TF CpxR, which is shown in the image as a submap in a gray box.


Sigma Factor      
Name: Sigma24      Signal transduction
Synonyms: RpoE
Gene name: rpoE
Sigmulon regulators:
Sigmulon Genes:


Transcribed promoters    
  Promoter Name TSS Position Transcribed Gene(s) Distance from TSS
to gene		 Promoter Sequence Box
(-10) 		Box
(-35) 		Evidence Code(s) Reference(s)
  ahpFp 639002 ahpF 751 tagatgtccttgattaacaccaaaattaaaccttttaaaaaccaggcattcaaaaacggcGaattcatcgaaatcaccgaa
                            -35                   -10       +1                    		TCAAA AAACCT [AIPP]
[TIM] 		[1]
  bacAp 3204175 bacA 44 aaagaaaataattaattttacagctgttaaaccaaacggttataacctggtcatacgcagTagttcggacaagcggtacat
                             -35                   -10      +1                    		TCATA AAACCA [AIPP]
[TIM] 		[2]
  bamAp 197821 bamA 107 ctgctgttccttgcgatcgaaaagatcaagggcggaccggtatccgagcgggttcaagacTtttgttatcgcattggctcg
                              -35                    -10    +1                    		TTCAA GGGCGG [HIPP]
[TIM] 		[3]
  bamAp2 197026 bamA, skp, lpxD, fabZ, lpxA, lpxB, rnhB, dnaE 902 gcggaagcacaaattgcaccaggtacggaactaaaagccgtagatggtatcgaaacgcctGattgggatgccgtgcgtttg
                            -35                   -10       +1                    		TCGAA GAACTA [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM] 		[1]
[4]
  bamBp 2638975 der, bamB 323 aaatacttatggtgcgctggcttctttggaacttgcgcagcaatttgttgacaaaaatgaActagagaaagctgccgccca
                             -35                   -10      +1                    		ACAAA GAACTT [AIPP]
[TIM] 		[1]
  bamCp 2599014 bamC 149 acgcgttattaatcagcgtctgatgccattacacaacaaactatttgtcgaacccaatccAatcccggtgaaatgggcatg
                         -35                    -10         +1                    		TCGAA GCCATT [HIPP]
[TIM] 		[3]
  bamDp 2736006 bamD 140 ctgatctaagcgttgaccgagttggttttcggacaccgttgcagtgagctgtactcgttgTgccatatatactgcttcttc
                        -35                     -10         +1                    		GCTGT GGTTTT [HIPP]
[TIM] 		[3]
  bamDp2 2735961 bamD 185 ttttattcgcgaacgtgaataatccgggaacatttcggccaaagcctgatctaagcgttgAccgagttggttttcggacac
                            -35                   -10       +1                    		TCTAA GAACAT [AIPP]
[TIM] 		[1]
  bamEp 2753486 bamE 119 ggcgaatgcgaaagaactgcttgcagcgtaaacttttttcctgcttcacggtcagagtaaAcagcaaaacgccgtaagacc
                              -35                   -10     +1                    		TCAGA AAACTT [AIPP]
[TIM] 		[2]
[1]
  bepAp1 2616068 bepA, yfgD 26 gccgttacactcaaaggcggcgcggtgggaacgatatttcacagtatcggtcaaatgactAtctccagaaatacaggatag
                             -35                   -10      +1                    		TCAAA GAACGA [AIPP]
[TIM] 		[1]
  bhsAp 1169033 bhsA 40 taaaaaatatcttgtatgtgatccagatcacatctatcatttagttatcgatcgttaagtAattgcttgcgacgtcattca
 		    [HTIM] [5]
  clpXp 457202 clpX, lon 224 attctgaaagttaaagggcgcatgaatgaacttatggcgcttcatacgggtcaatcattaGaacagattgaacgtgatacc
                            -35                  -10        +1                    		GGTCA GAACTT [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM] 		[1]
[4]
  cyaRp 2167114 cyaR 0 tggaaaattcttagaaaccgatcacatacagctgcatttattaaggttatcatccgtttcGctgaaaaacataacccataa
                         -35               -10              +1                    		AAGGTTATCAT CATACA [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[HTIM]
[RS-EPT-CBR]
[TIM] 		[6]
[7]
[8]
[4]
  cyaRp 2167114 cyaR 0 tggaaaattcttagaaaccgatcacatacagctgcatttattaaggttatcatccgtttcGctgaaaaacataacccataa
                          -35                   -10         +1                    		TATCA ATACAG [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[HTIM]
[RS-EPT-CBR]
[TIM] 		[6]
[7]
[8]
[4]
  cyaRp 2167114 cyaR 0 tggaaaattcttagaaaccgatcacatacagctgcatttattaaggttatcatccgtttcGctgaaaaacataacccataa
                     -35                        -10         +1                    		TATCAT ATCACA [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[HTIM]
[RS-EPT-CBR]
[TIM] 		[6]
[7]
[8]
[4]
  degPp 180845 degP 39 tttaccttttgcagaaactttagttcggaacttcaggctataaaacgaatctgaagaacaCagcaattttgcgttatctgt
                            -35                   -10       +1                    		TCTGA GAACTT [HIPP]
[TIM] 		[3]
[9]
[10]
[11]
[12]
[1]
[13]
[14]
  dsbCp 3038834 dsbC 12 accgagcgtctgcggcaacttcatcaacagcatcacccgcgggcgtgatgtctgaaaagaAcgggaagatttatgaagaaa
                            -35                    -10      +1                    		TCTGA CAGCAT [HIPP]
[TIM] 		[3]
  dsbCp2 3039633 prfB, recJ, dsbC 811 ggaaaaaaatctggctgaaaatacgttgaacgcttaccgtcgcgatctgtcaatgatggtGgagtggttgcatcaccgcgg
                            -35                     -10     +1                    		AATGA GAACGC [AIPP]
[TIM] 		[1]
  ecpRp 311393 ecpR 57 gaaaataattaaacttaatctcgtttaacctttattgatatgtactacgtatcttatttaCttccggtttactaaggaaac
                          -35                     -10       +1                    		TATCTTA TAACCTT [ICWHO] [15]
  eptBp 3710581 eptB 106 tttgtgcttcatgcacactctttccccacactttttccctttgctgtggtctacttattcGcgcgtgtagattttacttat
                               -35                  -10     +1                    		TACTTA CTTTTT [TIM] [16]
[17]
  eptBp 3710581 eptB 106 tttgtgcttcatgcacactctttccccacactttttccctttgctgtggtctacttattcGcgcgtgtagattttacttat
                                               -10          +1                    		TGGTCTACT   [TIM] [16]
[17]
  essDp 576873 essD, rrrD, rzpD 525 ttaattttttcatcgtgagccctttttttgaactattattaaaaaatgatgtcactgcgcGataaatattcatctaatcaa
                             -35                   -10      +1                    		GTCACT TGAACTA [AIPP]
[TIM] 		[1]
[18]
  fadMp1 464360 fadM 42 accctgtaattaatttgcatagtggcaattttttgccagactgaagaggtcataccagttAtgacctctgtacttataaca
                        -35                     -10         +1                    		GGTCATA GGCAATT [ICWHO] [15]
  fkpAp1 3477525 fkpA 106 gagacagcactcatttcgcggtcatcgaaactaatttaaacaaaaagagtctgaaaatagAtgataatagggcgtgtctgt
                            -35                   -10       +1                    		TCTGA AAACTA [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[IHBCE]
[RS-EPT-CBR]
[TIM] 		[19]
[3]
[1]
[4]
[13]
  ftnBp 1986775 ftnB 150 atttcatcaatgaaatgtaaaaatatataaacttgatgatttaagcattttcttatacccGttcagacgttattcttattt
                             -35                   -10      +1                    		TCTTA AAACTT [AIPP]
[TIM] 		[1]
  fusAp 3473685 tufA, fusA 171 gataaatccatggctctgcgcctggcgaacgaactttctgatgctgcagaaaacaaaggtActgcagttaagaaacgtgaa
                               -35                   -10    +1                    		ACAAA GAACTT [AIPP]
[TIM] 		[2]
[1]
  greAp2 3328853 greA 138 ccctataaagtaaacgatgacccttcgggaacttcagggtaaaatgactatcaaaatgtgAattgtagctgacctgggact
                             -35                   -10      +1                    		TCAAA GAACTT [AIPP]
[TIM] 		[20]
[1]
  gspAp4 3455634 gspB, gspA 236 atggaaataattcacattaaaaataatcgaccctatgcttataaatataatcaatatattGatggcagcatctttattatg
                             -35                   -10      +1                    		TCAAT GACCCT [AIPP]
[TIM] 		[1]
  hcpp2 914129 hcr, hcp 315 cgcggcgttttttaatgatctggcccgtgaactgattgctattatgttgatccctgggctGattcgccgcagccgctctac
                       -35                    -10           +1                    		GTTGA GCCCGT [AIPP]
[TIM] 		[1]
  hlpAp 200455 skp, lpxD, fabZ, lpxA 27 cgatgactttaggcgatcaatataagatcgccgggccacgcaaagaactgcaccctccggTgcaaatgggatggtaaggag
                          -35                   -10         +1                    		CTGCA GATCGC [HIPP]
[TIM] 		[3]
  hokEp 607731 hokE 105 gaagggtaagataacggcgggtgcctgaagctttccggtttcaggtttactctgaggtctGgaaagatgaagccccaggag
                            -35                    -10      +1                    		TCTGA AAGCTT [AIPP] [21]
  ibaGp2 3336886 ibaG 83 tatggcgttaaccgcctgtccggcaaacctgcctgcaagtcgagccttgtctgatttatcAgcgaggctttttgcttattt
                          -35                     -10       +1                    		TCTGA AACCTG [HIPP]
[ICWHO] 		[21]
[15]
  impp3 57336 pdxA, surA, lptD 227 ggccacgccaatgatttttccccaatactgcatatattccccaaatcgacacacggatatCagggctatctcccacaatat
                              -35                    -10    +1                    		ACGGA GCATAT [HIPP]
[TIM] 		[3]
  insKp 3721065 insK 133 aagctggtttacgcgcgctcaagattggcaccaaaagaaacattgcaatatcagttgatcCagaaaaagcggcatcagcat
                                -35                   -10   +1                    		GTTGA CAAAAG [HIPP] [21]
  lgoRp4 4595947 lgoR 96 aacattcatcgtagacatgattcggctctccactttttgttgccttagatatcaatgaaaAtgaaaaatggcagcggaacg
                             -35                  -10       +1                    		TATCAAT TCCACTT [ICWHO] [15]
  lhrp 1728353 lhr 734 caagtaatatttgtcataatgcgcgctgcaatttatccgtattaagagaatcagatgtccGataacgctcaacttaccggt
                            -35                    -10      +1                    		TCAGA GCAATT [AIPP]
[TIM] 		[1]
  lptAp1 3343326 lptA, lptB 54 cctctgaagacctcgtcacgttatacggaacaacatttaactccagcggtctgaaaatgcGcggcaacttacgcagcaaga
                            -35                   -10       +1                    		TCTGA GAACAA [CV(TIM)]
[HIPP]
[IDA]
[IMP]
[TIM] 		[22]
[23]
[24]
  lptBp 3343396 lptB, rpoN, hpf, ptsN, rapZ 548 acgcagcaagaacgccgagctgattgaaaaggttagaacatcctatgaaattcaaaacaaAcaaactcagccttaatcttg
                            -35                     -10     +1                    		TCAAA AAAGGT [AIPP]
[TIM] 		[1]
  lpxDp 200960 lpxD 11 acgccgttgcttacaacagcagcgatgtaaaagacatcactgccgacgtactgaaacaggTtaaataagtaatgccttcaa
                             -35                  -10       +1                    		ACTGA AAAAGA [HIPP]
[TIM] 		[3]
  lpxPp 2495578 lpxP 67 tgtcctgactagtctttacactctttacaggaaccattgtcgtacatgatggcccaaccaAttgagtgtaccgctgtcgac
                               -35                  -10     +1                    		GCCCA GAACCA [AIPP]
[HIPP]
[TIM] 		[2]
[1]
  malQp 3550399 malQ 329 aaaatatctttatttttggtcataccgtggaacaagtgaaggcaattctggccaaaggctAcgacccggtgaaatggcgga
                              -35                  -10      +1                    		GCCAA GAACAA [AIPP]
[TIM] 		[1]
  micAp 2814802 micA 0 ctccggtaatttttttaaaaattttctgaactctttcttcccaggcgagtctgagtatatGaaagacgcgcatttgttatc
                            -35                   -10       +1                    		TCTGA GAACTC [HIPP]
[TIM] 		[25]
[26]
  micLp 1958747 micL 227 gcactgcaaggtttatcaaaaattatggaacttattgcccatcgtgatgctccaatcattAtggccggagcaggagtccgt
                            -35                    -10      +1                    		TCCAA GAACTT [CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM] 		[27]
[4]
  narWp 1538687 narV, narW 1378 tggagtacgcatggtttaacaacgtcgaaaccaaaccgggcattggttatccgaaaaactGggaagatcaggaagagtggc
                            -35                   -10       +1                    		TCCGA AAACCA [AIPP]
[TIM] 		[1]
  opgGp2 1109257 opgG, opgH 78 tgcttaatccatgagccagcgtgctgaacgataccgggattctgttgtcggaatggctggTtatccattaaaatagatcgg
                         -35                        -10     +1                    		AATGGC TGAACG [CV(TIM)]
[HIPP]
[IDA]
[TIM] 		[3]
[1]
[28]
  opgGp2 1109257 opgG, opgH 78 tgcttaatccatgagccagcgtgctgaacgataccgggattctgttgtcggaatggctggTtatccattaaaatagatcgg
                          -35                   -10         +1                    		TCGGA GAACGA [CV(TIM)]
[HIPP]
[IDA]
[TIM] 		[3]
[1]
[28]
  phoQp5 1189940 phoQ 164 ctgaccgcgttcgaatacactattatggaaacgttgatacgcaataatggcaaagtggtcAgcaaagattcgttaatgctc
                            -35                 -10         +1                    		TGGCAAA GAAACGT [ICWHO] [15]
  plsBp 4256598 plsB 132 atccagtggtattattggccattgaaagaacctttttacattatgagcgtcaatatcagtGtaccgttaaatccgatgatt
                             -35                      -10   +1                    		TATCA AACCTT [AIPP]
[IEP]
[TIM] 		[1]
[29]
  psdp 4390638 mscM, psd 278 gtgagttcggcctctggcacctggagccggaacaaatcactcagggctttgtcgaattccAtgactatttaggtctgtgta
                              -35                   -10     +1                    		TCGAA GAACAA [AIPP]
[TIM] 		[2]
[1]
  rfaDp4 3793970 rfaD, waaF, waaC, waaL 17 gattcggatgtgatggtatgattacagacattcgtgtctgagattgtctctgactccataAttcgaaggttacagttatga
                           -35                   -10        +1                    		TCTGA GACATT [HIPP]
[TIM] 		[3]
  rnlBp 2766707 rnlB 277 cctgactactgtatgttactttatcctgaactacgcaccattgaaggtgtcttaaaaagtAagatgagtgggttaggcatg
                            -35                   -10       +1                    		TCTTA GAACTA [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM] 		[1]
[4]
  rpoDp4 3212693 rpoD 354 tacaaataatgctgccacccttgaaaaactgtcgatgtgggacgatatagcagataagaaTattgctgagcaaaccttcac
                          -35                     -10       +1                    		GCAGA AAACTG [AIPP]
[TIM] 		[3]
  rpoEp2a 2710087 rseC, rseB, rseA, rpoE 75 tgacaaacaaaaacagatgcgttacggaactttacaaaaacgagacactctaaccctttgCttgctcaaattgcagctaat
                 -35                        -10             +1                    		GACACT ATGCGT [HIPP]
[TIM] 		[30]
[31]
[11]
[32]
[13]
  rpoEp2a 2710087 rseC, rseB, rseA, rpoE 75 tgacaaacaaaaacagatgcgttacggaactttacaaaaacgagacactctaaccctttgCttgctcaaattgcagctaat
                           -35                   -10        +1                    		TCTAA GAACTT [HIPP]
[TIM] 		[30]
[31]
[11]
[32]
[13]
  rpoHp3 3600870 rpoH 87 tgcgtaatttattcacaagcttgcattgaacttgtggataaaatcacggtctgataaaacAgtgaatgataacctcgttgc
                            -35                   -10       +1                    		TCTGA GAACTT [AIPP]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[RS-EPT-CBR]
[TIM] 		[33]
[34]
[35]
[36]
[37]
[1]
[4]
[13]
  rseAp3 2709632 rseC, rseB, rseA 228 aagtggcggcgcgttgaaagaaatttcgaaccctgagaacttaatgttgtcagaagaactGagacagatagttttccgaac
                            -35                   -10       +1                    		TCAGA GAACCC [AIPP]
[TIM] 		[31]
[1]
  rsePp 196470 rseP 76 caggaattaaggacagcggtcatttaattccaggacacggtggtattttagatcgtattgAtagcctgacggctgcggtac
                              -35                    -10    +1                    		TCGTA CCAGGA [HIPP]
[TIM] 		[3]
  rutRp 1074134 rutR 108 ttattaatctgttaacattacgttatctaaaatatctggtaaaaagtggactaaacggtcAaaacagttgcacataaaaca
                             -35                  -10       +1                    		ACTAA AAAATA [AIPP]
[TIM] 		[1]
  rybBp 888057 rybB 0 aaaatgaaatttttttgcacaaccgcagaacttttccgcagggcatcagtcttaattagtGccactgcttttctttgatgt
                            -35                   -10       +1                    		TCTTA GAACTT [CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[IDA]
[RS-EPT-CBR]
[TIM] 		[26]
[4]
[38]
[39]
  sbmAp 396553 sbmA, yaiW 86 tcgaaacaattcttatggtcaggctggcgaactaagcgccttgctatgggtcacaatgggCggtttcatttggctgacgct
                             -35                   -10      +1                    		TCACA GAACTA [AIPP]
[HIPP]
[TIM] 		[2]
[1]
  sixAp 2456999 sixA 187 cgtggggaaagtttttggaaaacaactgcaactgacctgcaataagaaggtcaaagctatAtgaatccgcgctgaatggcg
                          -35                        -10    +1                    		AAAGCT CTGCAA [AIPP]
[CV(TIM)]
[IDA]
[TIM] 		[2]
[1]
[28]
  sixAp 2456999 sixA 187 cgtggggaaagtttttggaaaacaactgcaactgacctgcaataagaaggtcaaagctatAtgaatccgcgctgaatggcg
                             -35                   -10      +1                    		TCAAA CAACTG [AIPP]
[CV(TIM)]
[IDA]
[TIM] 		[2]
[1]
[28]
  surAp null apaH, apaG, rsmA, pdxA, surA       [NAS]
[TASES] 		[40]
[41]
[42]
  wzap2 2137193 wzc, wzb, wza -50 taaataaacaatgatgaaatccaaaatgaaattgatgccattattggtgtcagtaaccttGataagcggttgcacagtact
 		    [AIPP]
[TIM] 		[1]
  ybaBp 493709 ybaB, recR 367 cgcgacccgtgggcggcacaggtgagccaactttcgctaccaaaactggtcgaacaggtgGcgttaaatgcctggaaagag
                            -35                   -10       +1                    		TCGAA CAACTT [AIPP]
[TIM] 		[2]
[1]
  ybfHp 716641 ybfG 44 ataaagtcattttttattcaaatataaggaacttaatatttaaaaaatgttccatacaatTcctcatcataaatgacaccg
                            -35                    -10      +1                    		TCCAT GGAACTT [AIPP]
[TIM] 		[1]
  ydhIp 1720998 ydhI, ydhJ, ydhK 27 ttttcagaaattgcgcgtaaatttttcgcacttaaagaatatttattaatctaacgcaatAtattcggtcgtaaaggaatc
                            -35                   -10       +1                    		TCTAA GCACTT [AIPP]
[TIM] 		[1]
  ydiVp 1792087 ydiV 67 aaaggacccctgaaaaagtggttaacatggaacaaatgaaagttactccttctgtaattgTtatgtcttatggcctcatcc
                              -35                    -10    +1                    		TGTAA GAACAA [AIPP] [21]
  yeaYp 1890561 yeaY 29 tttatttacgtaacaacgtcgcatggaagaaacttccgggcaaagaatgaatcttaagagTatgccctgagaaaaaaagga
                              -35                   -10     +1                    		TCTTA AAACTT [AIPP]
[HIPP]
[TIM] 		[2]
[1]
  yfeKp 2537315 yfeK, yfeS 27 ccgatgatcctcatcgtaatccaaccgaaactttacctgattctggcagtcaaatcggctAtcacaaaacaaggataaggt
                            -35                   -10       +1                    		TCAAA AAACTT [AIPP]
[TIM] 		[1]
  yfeYp 2551243 yfeX, yfeY 27 gcttgtttttatgaagtaaaagaataacggcactttttggtgaatttgcactccaagcaaCgttattgaataaccaaagga
                              -35                   -10     +1                    		TCCAA GCACTT [AIPP]
[TIM] 		[2]
[1]
  yggNp1 3101798 yggN 175 caaactggatgaggtacgcaccagcgaacttttcgacgtttggtgggactaagaaagcatAcgggcgatgacaaatgcaaa
                          -35                   -10         +1                    		ACTAA GAACTT [HIPP]
[TIM] 		[3]
[1]
[13]
  yggNp2 3101744 yggN 121 aagcatacgggcgatgacaaatgcaaaactgcctgatgcgctacgcttatcaggcctggaAagatgcacgatcgagtaggc
                          -35                   -10         +1                    		TATCA AAACTG [HIPP]
[TIM] 		[3]
  yghFp 3112899 yghF -150 aatacagacaaagagcatctgcgaaaaattgcacgcgggatgttctggctgatgctgcttAttatttctgcaaaaatggcg
                         -35                    -10         +1                    		GCTGA AAAATT [HIPP]
[TIM] 		[3]
  ygiMp 3201104 ygiM 103 attttgcgccaaattgccatgcaacgggcaatttgacgggcgtaaaagtttgaagcagtgGcaagacctgacacagaggat
                             -35                     -10    +1                    		AAGCA CAATTT [HIPP]
[TIM] 		[3]
  ygiMp2 3201042 ygiM, cca 165 ttatgtcacataagtgacgatgaacggcgaacttaatgcgatcttttttgtcagtagataGtattttgcgccaaattgcca
                             -35                   -10      +1                    		TCAGT GAACTT [AIPP]
[TIM] 		[1]
  yhjJp 3682016 yhjJ 76 tgagttcaggtttatttcacttcttccgtgacattttcatgttcttgcggtctaacacgaAgtgtttttaacgtcatttag
                              -35                  -10      +1                    		TCTAA GACATT [AIPP]
[TIM] 		[1]
  yiaKp2 3742720 yiaK, yiaL, yiaM, yiaN, yiaO, lyxK, sgbH, sgbU, sgbE 13 tatatttgaaatcaagtttcgcatattgaaattttaagccaaaaaagcgatcaaaaaaacAaggaagcctgggatgaaagt
                            -35                    -10      +1                    		TCAAA GAAATT [AIPP]
[TIM] 		[1]
  yicJp 3836664 yicI, yicJ 735 aaaacaagttgatttgatatattaaatgaacaaattaatcttgatggcagtctgattattGgtgaagtttatagtcagttt
                            -35                    -10      +1                    		TCTGA GAACAA [AIPP]
[TIM] 		[1]
  yidQp 3867544 yidQ 184 ccagaacacccatcaggcgcgtcctcatcggctacgatgtaaaaatgggtctggaaatgaActtttcaagccttatcagcg
                                -35                     -10 +1                    		AATGA CTACGA [HIPP]
[TIM] 		[3]
  yieEp 3893829 yieE, yieF 52 aaagttgtaataagcttgtctgaatcgaacttttagccgctttagtctgtccatcattccAgtaaatgattactcttgtat
                           -35                      -10     +1                    		CATCA GAACTT [AIPP]
[TIM] 		[1]
  yiiSp 4112869 yiiS, uspD 98 gcaaatgacaatacccggaaaatccttctgaactcttcaccttaagcaatatcaaaaaaaAtggtaatccataagatcatt
                              -35                   -10     +1                    		TCAAA GAACTC [AIPP]
[TIM] 		[2]
[1]
  ykgCp1 320215 rclC, rclB, rclA 214 tcgttccttgtggagcgttaagcatcaacaaacggctaagggcatccatatcagactcctGagtggtttttgattacaaac
                         -35                     -10        +1                    		TATCAGA TCAACAA [ICWHO] [15]
  yoaCp1 1893966 yoaC 167 agcaactctggttttctttcttagctgaacaatctggttatagcgtgcggactgaccgttAaatttctccatcttactgga
                          -35                    -10        +1                    		GGACTGA TGAACAA [ICWHO] [15]
  yqjAp2 3247643 yqjA, mzrA 130 gacctttgttacaattagattcaatttgaatttatgtttttgaatgctttcttatctcacGatttaacagggaatagttca
                                 -35                   -10  +1                    		TCTCA TATGTT [HIPP]
[TIM] 		[3]
  yraPp 3296349 yraP 60 atccgcattccttcgcatcgtagtgctcgcattcaggaaatgcatatgctgacggtaaatTgcctgtgcgatctgatcgat
                         -35                    -10         +1                    		GCTGA GCTCGC [HIPP]
[TIM] 		[3]
  yraPp2 3296072 yraP 337 aacggagcggcccagcttacctgccattgcactaaatactgataatgttgtcttaacggcGattgccaacgatcgcttaca
                             -35                   -10      +1                    		TCTTA GCACTA [AIPP]
[TIM] 		[1]
  ytfJp 4439286 ytfJ 24 gcgggaaattcgataaatagcacatatgattaaaactcagacccaagtggtcggatcaccTgcatatcataagaaggaaac
                            -35                    -10      +1                    		TCGGA GATTAA [HIPP]
[TIM] 		[3]
Evidence: [AIPP] Automated inference of promoter position
[TIM] Transcription initiation mapping
[HIPP] Human inference of promoter position
[CV(RS-EPT-CBR)] cross validation(RS-EPT-CBR)
[CV(TIM)] cross validation(TIM)
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates
[HTIM] High-throughput transcription initiation mapping
[ICWHO] Inferred computationally without human oversight
[IHBCE] Inferred by a human based on computational evidence
[IDA] Inferred from direct assay
[IMP] Inferred from mutant phenotype
[IEP] Inferred from expression pattern
[NAS] Non-traceable author statement
[TASES] Traceable author statement to experimental support


Reference(s)    

 [1] Rhodius VA., Suh WC., Nonaka G., West J., Gross CA., 2005, Conserved and variable functions of the sigmaE stress response in related genomes., PLoS Biol 4(1):e2

 [2] Rezuchova B., Miticka H., Homerova D., Roberts M., Kormanec J., 2003, New members of the Escherichia coli sigmaE regulon identified by a two-plasmid system., FEMS Microbiol Lett 225(1):1-7

 [3] Dartigalongue C., Missiakas D., Raina S., 2001, Characterization of the Escherichia coli sigma E regulon., J Biol Chem 276(24):20866-75

 [4] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [5] Raghavan R., Sage A., Ochman H., 2011, Genome-wide identification of transcription start sites yields a novel thermosensing RNA and new cyclic AMP receptor protein-regulated genes in Escherichia coli., J Bacteriol 193(11):2871-4

 [6] De Lay N., Gottesman S., 2009, The Crp-activated small noncoding regulatory RNA CyaR (RyeE) links nutritional status to group behavior., J Bacteriol 191(2):461-76

 [7] Johansen J., Eriksen M., Kallipolitis B., Valentin-Hansen P., 2008, Down-regulation of Outer Membrane Proteins by Noncoding RNAs: Unraveling the cAMP-CRP- and sigma(E)-Dependent CyaR-ompX Regulatory Case., J Mol Biol 383(1):1-9

 [8] Maciag A., Peano C., Pietrelli A., Egli T., De Bellis G., Landini P., 2011, In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements., Nucleic Acids Res 39(13):5338-55

 [9] Hiratsu K., Amemura M., Nashimoto H., Shinagawa H., Makino K., 1995, The rpoE gene of Escherichia coli, which encodes sigma E, is essential for bacterial growth at high temperature., J Bacteriol 177(10):2918-22

 [10] Lipinska B., Sharma S., Georgopoulos C., 1988, Sequence analysis and regulation of the htrA gene of Escherichia coli: a sigma 32-independent mechanism of heat-inducible transcription., Nucleic Acids Res 16(21):10053-67

 [11] Raina S., Missiakas D., Georgopoulos C., 1995, The rpoE gene encoding the sigma E (sigma 24) heat shock sigma factor of Escherichia coli., EMBO J 14(5):1043-55

 [12] Rezuchova B., Kormanec J., 2001, A two-plasmid system for identification of promoters recognized by RNA polymerase containing extracytoplasmic stress response sigma(E) in Escherichia coli., J Microbiol Methods 45(2):103-11

 [13] Yamamoto K., Ishihama A., 2005, Transcriptional response of Escherichia coli to external zinc., J Bacteriol 187(18):6333-40

 [14] Yamamoto K., Ishihama A., 2006, Characterization of copper-inducible promoters regulated by CpxA/CpxR in Escherichia coli., Biosci Biotechnol Biochem 70(7):1688-95

 [15] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [16] Moon K., Gottesman S., 2009, A PhoQ/P-regulated small RNA regulates sensitivity of Escherichia coli to antimicrobial peptides., Mol Microbiol 74(6):1314-30

 [17] Moon K., Six DA., Lee HJ., Raetz CR., Gottesman S., 2013, Complex transcriptional and post-transcriptional regulation of an enzyme for lipopolysaccharide modification., Mol Microbiol 89(1):52-64

 [18] Rueggeberg KG., Toba FA., Bird JG., Franck N., Thompson MG., Hay AG., 2015, The lysis cassette of DLP12 defective prophage is regulated by RpoE., Microbiology 161(8):1683-93

 [19] Danese PN., Silhavy TJ., 1997, The sigma(E) and the Cpx signal transduction systems control the synthesis of periplasmic protein-folding enzymes in Escherichia coli., Genes Dev 11(9):1183-93

 [20] Potrykus K., Murphy H., Chen X., Epstein JA., Cashel M., 2010, Imprecise transcription termination within Escherichia coli greA leader gives rise to an array of short transcripts, GraL., Nucleic Acids Res 38(5):1636-51

 [21] Gama-Castro S., Jimenez-Jacinto V., Peralta-Gil M., Santos-Zavaleta A., Penaloza-Spinola MI., Contreras-Moreira B., Segura-Salazar J., Muniz-Rascado L., Martinez-Flores I., Salgado H., Bonavides-Martinez C., Abreu-Goodger C., Rodriguez-Penagos C., Miranda-Rios J., Morett E., Merino E., Huerta AM., Trevino-Quintanilla L., Collado-Vides J., 2008, RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation., Nucleic Acids Res 36(Database issue):D120-4

 [22] Martorana AM., Sperandeo P., Polissi A., Deho G., 2011, Complex transcriptional organization regulates an Escherichia coli locus implicated in lipopolysaccharide biogenesis., Res Microbiol 162(5):470-82

 [23] Sperandeo P., Cescutti R., Villa R., Di Benedetto C., Candia D., Deho G., Polissi A., 2007, Characterization of lptA and lptB, two essential genes implicated in lipopolysaccharide transport to the outer membrane of Escherichia coli., J Bacteriol 189(1):244-53

 [24] Sperandeo P., Pozzi C., Deho G., Polissi A., 2006, Non-essential KDO biosynthesis and new essential cell envelope biogenesis genes in the Escherichia coli yrbG-yhbG locus., Res Microbiol 157(6):547-58

 [25] Argaman L., Hershberg R., Vogel J., Bejerano G., Wagner EG., Margalit H., Altuvia S., 2001, Novel small RNA-encoding genes in the intergenic regions of Escherichia coli., Curr Biol 11(12):941-50

 [26] Johansen J., Rasmussen AA., Overgaard M., Valentin-Hansen P., 2006, Conserved small non-coding RNAs that belong to the sigmaE regulon: role in down-regulation of outer membrane proteins., J Mol Biol 364(1):1-8

 [27] Klein G., Kobylak N., Lindner B., Stupak A., Raina S., 2014, Assembly of lipopolysaccharide in Escherichia coli requires the essential LapB heat shock protein., J Biol Chem 289(21):14829-53

 [28] Wade JT., Roa DC., Grainger DC., Hurd D., Busby SJ., Struhl K., Nudler E., 2006, Extensive functional overlap between sigma factors in Escherichia coli., Nat Struct Mol Biol 13(9):806-14

 [29] Wahl A., My L., Dumoulin R., Sturgis JN., Bouveret E., 2011, Antagonistic regulation of dgkA and plsB genes of phospholipid synthesis by multiple stress responses in Escherichia coli., Mol Microbiol 80(5):1260-75

 [30] Klein G., Stupak A., Biernacka D., Wojtkiewicz P., Lindner B., Raina S., 2016, Multiple Transcriptional Factors Regulate Transcription of the rpoE Gene in Escherichia coli under Different Growth Conditions and When the Lipopolysaccharide Biosynthesis Is Defective., J Biol Chem 291(44):22999-23019

 [31] Missiakas D., Mayer MP., Lemaire M., Georgopoulos C., Raina S., 1997, Modulation of the Escherichia coli sigmaE (RpoE) heat-shock transcription-factor activity by the RseA, RseB and RseC proteins., Mol Microbiol 24(2):355-71

 [32] Rouviere PE., De Las Penas A., Mecsas J., Lu CZ., Rudd KE., Gross CA., 1995, rpoE, the gene encoding the second heat-shock sigma factor, sigma E, in Escherichia coli., EMBO J 14(5):1032-42

 [33] Erickson JW., Vaughn V., Walter WA., Neidhardt FC., Gross CA., 1987, Regulation of the promoters and transcripts of rpoH, the Escherichia coli heat shock regulatory gene., Genes Dev 1(5):419-32

 [34] Fujita N., Ishihama A., 1987, Heat-shock induction of RNA polymerase sigma-32 synthesis in Escherichia coli: transcriptional control and a multiple promoter system., Mol Gen Genet 210(1):10-5

 [35] Janaszak A., Majczak W., Nadratowska B., Szalewska-Palasz A., Konopa G., Taylor A., 2007, A {sigma}54-dependent promoter in the regulatory region of the Escherichia coli rpoH gene., Microbiology 153(Pt 1):111-23

 [36] Kallipolitis BH., Valentin-Hansen P., 1998, Transcription of rpoH, encoding the Escherichia coli heat-shock regulator sigma32, is negatively controlled by the cAMP-CRP/CytR nucleoprotein complex., Mol Microbiol 29(4):1091-9

 [37] Nagai H., Yano R., Erickson JW., Yura T., 1990, Transcriptional regulation of the heat shock regulatory gene rpoH in Escherichia coli: involvement of a novel catabolite-sensitive promoter., J Bacteriol 172(5):2710-5

 [38] Thompson KM., Rhodius VA., Gottesman S., 2007, {sigma}E Regulates and Is Regulated by a Small RNA in Escherichia coli., J Bacteriol 189(11):4243-56

 [39] Vogel J., Bartels V., Tang TH., Churakov G., Slagter-Jager JG., Huttenhofer A., Wagner EG., 2003, RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria., Nucleic Acids Res 31(22):6435-43

 [40] 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

 [41] Roa BB., Connolly DM., Winkler ME., 1989, Overlap between pdxA and ksgA in the complex pdxA-ksgA-apaG-apaH operon of Escherichia coli K-12., J Bacteriol 171(9):4767-77

 [42] Tormo A., Almiron M., Kolter R., 1990, surA, an Escherichia coli gene essential for survival in stationary phase., J Bacteriol 172(8):4339-47

RegulonDB