# # Transcription Factor Prediction Dataset Version 2.0 # # 184 TFs experimentally characterized and deposited in RegulonDB were used as # seeds in BLASTP searches against the complete proteome of E. coli. E-values ≤ 1e-6 # and a coverage of 70% were considered. In addition, TFs specifically associated to # E. coli K12 and deposited in DBD database, HAMAP, Superfamily DB and PFAM # databases were retrieved. # # Reference: # # The functional landscape bound to the transcription factors of Escherichia coli K-12. # Pérez-Rueda E, Tenorio-Salgado S, Huerta-Saquero A, Balderas-Martínez YI, Moreno-Hagelsieb G. # Comput Biol Chem. 2015 Jun 6;58:93-103. doi: 10.1016/j.compbiolchem.2015.06.002. # PMID: 26094112 # _____________________________________________________________________________ # Column Description: # (1) Gene Name # (2) Bnumber (Locus) # (3) UniProt ID # (4) GI # (5) Evolutionary Family # (6) Status [Prediction, Experimental characterized] # (7) Score # (8) PFAM ID # (9) PFAM Description MOTIF # (10) Motif Position # (11) PFAM Description MOTIF # (12) Motif Position # Gene Name Locus ID Uniprot GI Family Status Score PFAM PFAM_DESCRIPTION POSITION PFAM PFAM_DESCRIPTION POSITION aaeR b3243 AAER_ECOLI 16131133 LysR Prediction 0.0086 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 4_63 PF03466.15 LysR substrate binding domain 87_293 abgR b1339 ABGR_ECOLI 16129300 LysR Prediction 0.002 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 7_66 PF03466.15 LysR substrate binding domain 90_298 allS b0504 ALLS_ECOLI 16128488 LysR Exp_characterized 0.0047 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 4_63 PF03466.15 LysR substrate binding domain 87_294 cbl b1987 CBL_ECOLI 16129929 LysR Exp_characterized 2.07e_09 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_64 PF03466.15 LysR substrate binding domain 88_296 cynR b0338 CYNR_ECOLI 157783149 LysR Exp_characterized 0.00042 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 86_291 cysB b1275 CYSB_ECOLI 16129236 LysR Exp_characterized 1.26e_09 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_64 PF03466.15 LysR substrate binding domain 90_296 yeaT b1799 DMLR_ECOLI 90111335 LysR Prediction 0.011 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 7_66 PF03466.15 LysR substrate binding domain 90_296 dsdC b2364 DSDC_ECOLI 16130296 LysR Exp_characterized 0.011 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 17_76 PF03466.15 LysR substrate binding domain 98_308 gcvA b2808 GCVA_ECOLI 16130715 LysR Exp_characterized 0.014 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 8_67 PF03466.15 LysR substrate binding domain 89_293 hcaR b2537 HCAR_ECOLI 16130462 LysR Exp_characterized 0.00075 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 86_292 hdfR b4480 HDFR_ECOLI 49176402 LysR Exp_characterized 0.015 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 84_272 argP b2916 ICIA_ECOLI 16130817 LysR Exp_characterized 0.021 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 6_64 PF03466.15 LysR substrate binding domain 88_290 ilvY b3773 ILVY_ECOLI 16131631 LysR Exp_characterized 0.0015 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 86_297 leuO b0076 LEUO_ECOLI 90111083 LysR Exp_characterized 0.0016 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 24_82 PF03466.15 LysR substrate binding domain 116_313 lrhA b2289 LRHA_ECOLI 16130224 LysR Exp_characterized 0.0019 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 13_72 PF03466.15 LysR substrate binding domain 95_288 lysR b2839 LYSR_ECOLI 16130743 LysR Exp_characterized 0.0029 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 6_65 PF03466.15 LysR substrate binding domain 89_295 metR b3828 METR_ECOLI 16131677 LysR Exp_characterized 0.0014 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 4_63 PF03466.15 LysR substrate binding domain 84_290 modE b0761 MODE_ECOLI 16128729 LysR Exp_characterized 2.61e_06 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 19_83 PF03459.12 TOBE domain 125_189 197_258 nac b1988 NAC_ECOLI 16129930 LysR Exp_characterized 0.0038 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 86_292 nhaR b0020 NHAR_ECOLI 16128014 LysR Exp_characterized 0.014 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 8_67 PF03466.15 LysR substrate binding domain 92_290 oxyR b3961 OXYR_ECOLI 16131799 LysR Exp_characterized 2.33e_09 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 86_294 perR b0254 PERR_ECOLI 16128239 LysR Prediction 0.017 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 9_68 PF03466.15 LysR substrate binding domain 89_292 yjiE b4327 QSED_ECOLI 16132148 LysR Prediction 0.01 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 13_72 PF03466.15 LysR substrate binding domain 96_299 tdcA b3118 TDCA_ECOLI 16131011 LysR Exp_characterized 0.0022 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 9_68 PF03466.15 LysR substrate binding domain 92_299 ttdR b3060 TTDR_ECOLI 16130956 LysR Exp_characterized 0.018 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 8_67 PF03466.15 LysR substrate binding domain 91_297 xapR b2405 XAPR_ECOLI 16130331 LysR Exp_characterized 0.0018 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 9_68 PF03466.15 LysR substrate binding domain 92_294 yafC b0208 YAFC_ECOLI 16128195 LysR Prediction 0.003 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 88_294 yahB b0316 YAHB_ECOLI 16128301 LysR Prediction 0.019 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 8_66 PF03466.15 LysR substrate binding domain 90_292 ybdO b0603 YBDO_ECOLI 16128586 LysR Prediction 0.0029 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 12_71 PF03466.15 LysR substrate binding domain 116_300 ybeF b0629 YBEF_ECOLI 90111155 LysR Prediction 0.0073 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 31_90 PF03466.15 LysR substrate binding domain 114_317 ybhD b0768 YBHD_ECOLI 145698233 LysR Prediction 0.00039 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 88_295 ycaN b0900 YCAN_ECOLI 16128867 LysR Prediction 0.0053 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 88_292 ycjZ b1328 YCJZ_ECOLI 16129289 LysR Prediction 0.012 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 6_65 PF03466.15 LysR substrate binding domain 89_298 ydcI b1422 YDCI_ECOLI 90111269 LysR Prediction 0.0024 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 13_72 PF03466.15 LysR substrate binding domain 96_306 ydhB b1659 YDHB_ECOLI 16129617 LysR Prediction 0.0079 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_63 PF03466.15 LysR substrate binding domain 87_292 yeeY b2015 YEEY_ECOLI 90111371 LysR Prediction 0.0065 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 88_294 yeiE b2157 YEIE_ECOLI 16130095 LysR Prediction 0.00073 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 84_289 yfeR b2409 YFER_ECOLI 16130335 LysR Prediction 0.00066 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 88_294 yfiE b2577 YFIE_ECOLI 90111462 LysR Prediction 0.0028 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 85_291 ygfI b2921 YGFI_ECOLI 90111513 LysR Prediction 0.01 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 6_65 PF03466.15 LysR substrate binding domain 88_292 yhaJ b3105 YHAJ_ECOLI 16131000 LysR Prediction 0.0063 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 9_68 PF03466.15 LysR substrate binding domain 92_293 yhjC b3521 YHJC_ECOLI 145698322 LysR Prediction 0.012 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 4_63 PF03466.15 LysR substrate binding domain 87_295 yiaU b3585 YIAU_ECOLI 16131456 LysR Prediction 0.016 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 8_67 PF03466.15 LysR substrate binding domain 91_305 yidZ b3711 YIDZ_ECOLI 16131579 LysR Prediction 0.00069 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 10_67 PF03466.15 LysR substrate binding domain 92_316 yneJ b1526 YNEJ_ECOLI 16129485 LysR Prediction 0.004 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 3_62 PF03466.15 LysR substrate binding domain 84_284 ynfL b1595 YNFL_ECOLI 16129553 LysR Prediction 0.00089 PF00126.22 Bacterial regulatory helix_turn_helix protein, lysR family 5_64 PF03466.15 LysR substrate binding domain 88_297 ascG b2714 ASCG_ECOLI 16130621 GalR/LacI Exp_characterized 3.27e_05 PF00356.16 Bacterial regulatory proteins, lacI family 4_49 PF13377.1 Periplasmic binding protein_like domain 172_332 cytR b3934 CYTR_ECOLI 16131772 GalR/LacI Exp_characterized 4.09e_06 PF00356.16 Bacterial regulatory proteins, lacI family 11_56 PF13377.1 Periplasmic binding protein_like domain 176_337 ebgR b3075 EBGR_ECOLI 16130970 GalR/LacI Prediction 0.00031 PF00356.16 Bacterial regulatory proteins, lacI family 3_50 PF13377.1 Periplasmic binding protein_like domain 166_326 fruR b0080 FRUR_ECOLI 16128073 GalR/LacI Exp_characterized 0.00032 PF00356.16 Bacterial regulatory proteins, lacI family 2_50 PF13377.1 Periplasmic binding protein_like domain 171_329 galR b2837 GALR_ECOLI 16130741 GalR/LacI Exp_characterized 3.7e_05 PF00356.16 Bacterial regulatory proteins, lacI family 3_48 PF13377.1 Periplasmic binding protein_like domain 168_329 galS b2151 GALS_ECOLI 16130089 GalR/LacI Exp_characterized 2.73e_05 PF00356.16 Bacterial regulatory proteins, lacI family 3_48 PF13377.1 Periplasmic binding protein_like domain 168_329 gntR b3438 GNTR_ECOLI 49176356 GalR/LacI Exp_characterized 3.74e_05 PF00356.16 Bacterial regulatory proteins, lacI family 7_52 PF00532.16 Periplasmic binding proteins and sugar binding domain of LacI family 63_319 idnR b4264 IDNR_ECOLI 16132086 GalR/LacI Exp_characterized 6.35e_05 PF00356.16 Bacterial regulatory proteins, lacI family 7_52 PF13377.1 Periplasmic binding protein_like domain 172_332 lacI b0345 LACI_ECOLI 49176012 GalR/LacI Exp_characterized 1.96e_10 PF00356.16 Bacterial regulatory proteins, lacI family 5_50 PF13377.1 Periplasmic binding protein_like domain 171_329 malI b1620 MALI_ECOLI 16129578 GalR/LacI Exp_characterized 0.00022 PF00356.16 Bacterial regulatory proteins, lacI family 8_53 PF00532.16 Periplasmic binding proteins and sugar binding domain of LacI family 64_342 purR b1658 PURR_ECOLI 16129616 GalR/LacI Exp_characterized 4.52e_11 PF00356.16 Bacterial regulatory proteins, lacI family 3_48 PF13377.1 Periplasmic binding protein_like domain 170_331 rbsR b3753 RBSR_ECOLI 16131621 GalR/LacI Exp_characterized 5.06e_07 PF00356.16 Bacterial regulatory proteins, lacI family 3_48 PF13377.1 Periplasmic binding protein_like domain 169_330 treR b4241 TRER_ECOLI 16132063 GalR/LacI Exp_characterized 2.44e_10 PF00356.16 Bacterial regulatory proteins, lacI family 6_51 PF13377.1 Periplasmic binding protein_like domain 167_315 ycjW b1320 YCJW_ECOLI 16129281 GalR/LacI Prediction 4.73e_05 PF00356.16 Bacterial regulatory proteins, lacI family 4_49 PF13377.1 Periplasmic binding protein_like domain 175_331 ada b2213 ADA_ECOLI 16130150 AraC/XylS Exp_characterized 1.69e_08 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 140_182 PF02870.10 6_O_methylguanine DNA methyltransferase, ribonuclease_like domain 188_266 adiY b4116 ADIY_ECOLI 16131942 AraC/XylS Exp_characterized 2.1e_06 PF12833.2 Helix_turn_helix domain 168_246 PB000483 (PFam_B_483) null 1_114 appY b0564 APPY_ECOLI 16128547 AraC/XylS Exp_characterized 0.035 PF12833.2 Helix_turn_helix domain 158_236 null null null araC b0064 ARAC_ECOLI 16128058 AraC/XylS Exp_characterized 0.032 PF12833.2 Helix_turn_helix domain 200_279 PF02311.14 AraC_like ligand binding domain 20_160 chbR b1735 CHBR_ECOLI 16129689 AraC/XylS Exp_characterized 0.091 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 181_223 234_273 PF07883.6 Cupin domain 26_90 envY b0566 ENVY_ECOLI 16128549 AraC/XylS Exp_characterized 0.027 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 155_195 206_245 null null null eutR b2437 EUTR_ECOLI 16130362 AraC/XylS Prediction 0.049 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 249_290 301_343 null null null feaR b1384 FEAR_ECOLI 16129345 AraC/XylS Exp_characterized 0.011 PF12833.2 Helix_turn_helix domain 219_299 null null null gadW b3515 GADW_ECOLI 16131387 AraC/XylS Exp_characterized 0.014 PF12833.2 Helix_turn_helix domain 158_236 PB000800 (Pfam_B_800) null 79_119 gadX b3516 GADX_ECOLI 16131388 AraC/XylS Exp_characterized 0.032 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 151_191 204_241 null null null marA b1531 MARA_ECOLI 90111290 AraC/XylS Exp_characterized 0.00013 PF12833.2 Helix_turn_helix domain 31_110 null null null melR b4118 MELR_ECOLI 16131944 AraC/XylS Exp_characterized 0.019 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 200_241 252_291 PB000578 (Pfam_B_578) null 7_173 rhaR b3906 RHAR_ECOLI 171701684 AraC/XylS Exp_characterized 0.071 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 185_226 237_276 PF02311.14 AraC_like ligand binding domain 19_156 rhaS b3905 RHAS_ECOLI 16131745 AraC/XylS Exp_characterized 0.025 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 180_221 232_271 PF02311.14 AraC_like ligand binding domain 14_154 rob b4396 ROB_ECOLI 16132213 AraC/XylS Exp_characterized 1.65e_08 PF12833.2 Helix_turn_helix domain 27_106 PF06445.10 GyrI_like small molecule binding domain 126_288 soxS b4062 SOXS_ECOLI 16131888 AraC/XylS Exp_characterized 0.0021 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 66_105 null null null xylR b3569 XYLR_ECOLI 16131440 AraC/XylS Exp_characterized 0.002 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 294_335 346_385 PF13377.1 Periplasmic binding protein_like domain 111_277 ybcM b0546 YBCM_ECOLI 16128529 AraC/XylS Prediction 0.023 PF12833.2 Helix_turn_helix domain 184_262 null null null ydeO b1499 YDEO_ECOLI 16129458 AraC/XylS Exp_characterized 0.038 PF12833.2 Helix_turn_helix domain 156_233 null null null ydiP b1696 YDIP_ECOLI 16129652 AraC/XylS Prediction 0.025 PF12833.2 Helix_turn_helix domain 202_281 PF02311.14 AraC_like ligand binding domain 23_158 yeaM b1790 YEAM_ECOLI 16129744 AraC/XylS Prediction 0.061 PF12833.2 Helix_turn_helix domain 180_258 PF02311.14 AraC_like ligand binding domain 19_152 yidL b3680 YIDL_ECOLI 226524758 AraC/XylS Prediction 0.0049 PF12833.2 Helix_turn_helix domain 206_285 PF02311.14 AraC_like ligand binding domain 55_204 yijO b3954 YIJO_ECOLI 16131792 AraC/XylS Prediction 0.031 PF00165.18 Bacterial regulatory helix_turn_helix proteins, AraC family 230_269 null null null ykgD b0305 YKGD_ECOLI 16128290 AraC/XylS Prediction 0.018 PF12833.2 Helix_turn_helix domain 199_278 PF12852.2 Cupin 2_162 ypdC b2382 YPDC_ECOLI 16130314 AraC/XylS Prediction 0.018 PF12833.2 Helix_turn_helix domain 203_282 null null null yqhC b3010 YQHC_ECOLI 90111526 AraC/XylS Exp_characterized 0.03 PF12833.2 Helix_turn_helix domain 232_311 PF06719.8 AraC_type transcriptional regulator N_terminus 46_199 csiR b2664 CSIR_ECOLI 90111478 GntR Exp_characterized 0.019 PF00392.16 Bacterial regulatory proteins, gntR family 6_66 PF07729.7 FCD domain 76_208 dgoR b4479 DGOR_ECOLI 49176392 GntR Prediction 0.0089 PF00392.16 Bacterial regulatory proteins, gntR family 5_68 PF07729.7 FCD domain 97_220 exuR b3094 EXUR_ECOLI 90111537 GntR Exp_characterized 0.018 PF00392.16 Bacterial regulatory proteins, gntR family 9_72 PF07729.7 FCD domain 96_220 fadR b1187 FADR_ECOLI 16129150 GntR Exp_characterized 4.14e_08 PF00392.16 Bacterial regulatory proteins, gntR family 8_71 PF07840.7 FadR C_terminal domain 72_235 frlR b3375 FRLR_ECOLI 162135910 GntR Prediction 0.00019 PF00392.16 Bacterial regulatory proteins, gntR family 12_75 PF07702.8 UTRA domain 96_235 glcC b2980 GLCC_ECOLI 16130880 GntR Exp_characterized 0.02 PF00392.16 Bacterial regulatory proteins, gntR family 9_71 PF07729.7 FCD domain 96_227 lldR b3604 LLDR_ECOLI 16131475 GntR Exp_characterized 0.0099 PF00392.16 Bacterial regulatory proteins, gntR family 8_71 PF07729.7 FCD domain 100_224 yncC b1450 MCBR_ECOLI 90111276 GntR Exp_characterized 0.016 PF00392.16 Bacterial regulatory proteins, gntR family 12_74 PF07729.7 FCD domain 84_210 mngR b0730 MNGR_ECOLI 16128705 GntR Exp_characterized 0.0021 PF00392.16 Bacterial regulatory proteins, gntR family 6_69 PF07702.8 UTRA domain 90_229 nanR b3226 NANR_ECOLI 49176329 GntR Exp_characterized 0.006 PF00392.16 Bacterial regulatory proteins, gntR family 32_95 PF07729.7 FCD domain 123_247 pdhR b0113 PDHR_ECOLI 16128106 GntR Exp_characterized 0.013 PF00392.16 Bacterial regulatory proteins, gntR family 11_74 PF07729.7 FCD domain 99_227 phnF b4102 PHNF_ECOLI 16131928 GntR Prediction 8.35e_08 PF00392.16 Bacterial regulatory proteins, gntR family 13_75 PF07702.8 UTRA domain 96_236 uxuR b4324 UXUR_ECOLI 16132145 GntR Exp_characterized 0.0028 PF00392.16 Bacterial regulatory proteins, gntR family 10_73 PF07729.7 FCD domain 97_226 ydfH b1540 YDFH_ECOLI 16129499 GntR Prediction 0.019 PF00392.16 Bacterial regulatory proteins, gntR family 13_75 PF07729.7 FCD domain 87_209 yegW b2101 YEGW_ECOLI 16130039 GntR Prediction 0.0019 PF00392.16 Bacterial regulatory proteins, gntR family 24_87 PF07702.8 UTRA domain 107_243 yidP b3684 YIDP_ECOLI 16131552 GntR Prediction 0.0022 PF00392.16 Bacterial regulatory proteins, gntR family 2_65 PF07702.8 UTRA domain 86_225 yieP b3755 YIEP_ECOLI 49176401 GntR Prediction 0.021 PF00392.16 Bacterial regulatory proteins, gntR family 14_77 PF07729.7 FCD domain 105_227 yihL b3872 YIHL_ECOLI 16131712 GntR Prediction 0.013 PF00392.16 Bacterial regulatory proteins, gntR family 7_70 PF07702.8 UTRA domain 91_231 yjiR b4340 YJIR_ECOLI 16132161 GntR Prediction 0.00011 PF00392.16 Bacterial regulatory proteins, gntR family 3_66 PF00155.16 Aminotransferase class I and II 106_461 yjjM b4357 YJJM_ECOLI 49176497 GntR Prediction 0.02 PF00392.16 Bacterial regulatory proteins, gntR family 7_63 PF07729.7 FCD domain 159_287 acrR b0464 ACRR_ECOLI 16128448 TetR/AcrR Exp_characterized 0.003 PF00440.18 Bacterial regulatory proteins, tetR family 16_62 PF08361.6 MAATS_type transcriptional repressor, C_terminal region 84_204 betI b0313 BETI_ECOLI 49176011 TetR/AcrR Exp_characterized 0.014 PF00440.18 Bacterial regulatory proteins, tetR family 14_60 PF13977.1 Bacterial transcriptional repressor 67_193 envR b3264 ENVR_ECOLI 16131152 TetR/AcrR Exp_characterized 0.0044 PF00440.18 Bacterial regulatory proteins, tetR family 16_62 PF08361.6 MAATS_type transcriptional repressor, C_terminal region 84_203 fabR b3963 FABR_ECOLI 145698338 TetR/AcrR Exp_characterized 0.019 PF00440.18 Bacterial regulatory proteins, tetR family 15_62 null null null nemR b1649 NEMR_ECOLI 145698269 TetR/AcrR Exp_characterized 0.0095 PF00440.18 Bacterial regulatory proteins, tetR family 13_59 null null null rutR b1013 RUTR_ECOLI 16128979 TetR/AcrR Exp_characterized 2.5e_07 PF00440.18 Bacterial regulatory proteins, tetR family 23_69 PF08362.6 YcdC_like protein, C_terminal region 70_212 slmA b3641 SLMA_ECOLI 90111625 TetR/AcrR Prediction 0.026 PF00440.18 Bacterial regulatory proteins, tetR family 16_62 null null null uidR b1618 UIDR_ECOLI 16129576 TetR/AcrR Exp_characterized 0.0057 PF00440.18 Bacterial regulatory proteins, tetR family 16_62 null null null ybiH b0796 YBIH_ECOLI 162135896 TetR/AcrR Prediction 5.67e_07 PF00440.18 Bacterial regulatory proteins, tetR family 17_62 PF09209.6 Domain of unknown function (DUF1956) 95_218 ybjK b0846 YBJK_ECOLI 16128814 TetR/AcrR Prediction 0.0059 PF00440.18 Bacterial regulatory proteins, tetR family 13_59 PF13977.1 Bacterial transcriptional repressor 67_178 ycfQ b1111 YCFQ_ECOLI 90111214 TetR/AcrR Prediction 0.002 PF00440.18 Bacterial regulatory proteins, tetR family 24_70 null null null yjdC b4135 YJDC_ECOLI 90111689 TetR/AcrR Prediction 0.012 PF00440.18 Bacterial regulatory proteins, tetR family 6_52 null null null yjgJ b4251 YJGJ_ECOLI 90111712 TetR/AcrR Prediction 0.0097 PF00440.18 Bacterial regulatory proteins, tetR family 21_67 null null null agaR b3131 AGAR_ECOLI 16131023 DeoR Exp_characterized 0.068 PF08220.7 DeoR_like helix_turn_helix domain 18_74 PF00455.17 DeoR C terminal sensor domain 87_248 deoR b0840 DEOR_ECOLI 16128808 DeoR Exp_characterized 0.029 PF08220.7 DeoR_like helix_turn_helix domain 8_61 PF00455.17 DeoR C terminal sensor domain 73_234 fucR b2805 FUCR_ECOLI 16130712 DeoR Exp_characterized 0.02 PF08220.7 DeoR_like helix_turn_helix domain 5_61 PF00455.17 DeoR C terminal sensor domain 74_234 glpR b3423 GLPR_ECOLI 16131297 DeoR Exp_characterized 0.028 PF08220.7 DeoR_like helix_turn_helix domain 6_62 PF00455.17 DeoR C terminal sensor domain 72_233 sgcR b4300 SGCR_ECOLI 16132121 DeoR Prediction 0.026 PF08220.7 DeoR_like helix_turn_helix domain 8_65 PF00455.17 DeoR C terminal sensor domain 77_237 srlR b2707 SRLR_ECOLI 16130614 DeoR Exp_characterized 0.09 PF08220.7 DeoR_like helix_turn_helix domain 6_62 PF00455.17 DeoR C terminal sensor domain 72_233 ulaR b4191 ULAR_ECOLI 16132013 DeoR Exp_characterized 0.038 PF08220.7 DeoR_like helix_turn_helix domain 6_62 PF00455.17 DeoR C terminal sensor domain 74_232 yciT b1284 YCIT_ECOLI 16129245 DeoR Prediction 0.043 PF08220.7 DeoR_like helix_turn_helix domain 4_60 PF00455.17 DeoR C terminal sensor domain 67_228 ydjF b1770 YDJF_ECOLI 16129724 DeoR Prediction 0.067 PF08220.7 DeoR_like helix_turn_helix domain 6_62 PF00455.17 DeoR C terminal sensor domain 74_234 ygbI b2735 YGBI_ECOLI 226524741 DeoR Prediction 0.044 PF08220.7 DeoR_like helix_turn_helix domain 6_62 PF00455.17 DeoR C terminal sensor domain 73_233 yihW b3884 YIHW_ECOLI 90111660 DeoR Prediction 0.026 PF08220.7 DeoR_like helix_turn_helix domain 11_67 PF00455.17 DeoR C terminal sensor domain 77_238 arcA b4401 ARCA_ECOLI 16132218 OmpR Exp_characterized 1.82e_06 PF00486.23 Transcriptional regulatory protein, C terminal 156_232 PF00072.19 Response regulator receiver domain 6_115 baeR b2079 BAER_ECOLI 16130019 OmpR Exp_characterized 0.00011 PF00486.23 Transcriptional regulatory protein, C terminal 156_232 PF00072.19 Response regulator receiver domain 13_122 basR b4113 BASR_ECOLI 16131939 OmpR Prediction 0.00023 PF00486.23 Transcriptional regulatory protein, C terminal 145_216 PF00072.19 Response regulator receiver domain 3_113 cadC b4133 CADC_ECOLI 16131959 OmpR Exp_characterized 0.0031 PF00486.23 Transcriptional regulatory protein, C terminal 24_100 PB000479 (Pfam_B_479) null 418_510 cpxR b3912 CPXR_ECOLI 16131752 OmpR Exp_characterized 8.13e_05 PF00486.23 Transcriptional regulatory protein, C terminal 152_228 PF00072.19 Response regulator receiver domain 4_112 creB b4398 CREB_ECOLI 16132215 OmpR Exp_characterized 9.7e_05 PF00486.23 Transcriptional regulatory protein, C terminal 150_226 PF00072.19 Response regulator receiver domain 6_116 cusR b0571 CUSR_ECOLI 16128554 OmpR Exp_characterized 8.6e_05 PF00486.23 Transcriptional regulatory protein, C terminal 146_221 PF00072.19 Response regulator receiver domain 3_113 dcuR b4124 DCUR_ECOLI 16131950 OmpR Exp_characterized 0.0035 null null null PF00072.19 Response regulator receiver domain 4_118 kdpE b0694 KDPE_ECOLI 16128670 OmpR Exp_characterized 1.21e_06 PF00486.23 Transcriptional regulatory protein, C terminal 146_223 PF00072.19 Response regulator receiver domain 4_113 ompR b3405 OMPR_ECOLI 16131282 OmpR Exp_characterized 0.00019 PF00486.23 Transcriptional regulatory protein, C terminal 156_232 PF00072.19 Response regulator receiver domain 7_117 phoB b0399 PHOB_ECOLI 16128384 OmpR Exp_characterized 7.05e_07 PF00486.23 Transcriptional regulatory protein, C terminal 149_225 PF00072.19 Response regulator receiver domain 5_117 phoP b1130 PHOP_ECOLI 16129093 OmpR Exp_characterized 1.04e_06 PF00486.23 Transcriptional regulatory protein, C terminal 144_220 PF00072.19 Response regulator receiver domain 3_113 qseB b3025 QSEB_ECOLI 16130921 OmpR Exp_characterized 0.00029 PF00486.23 Transcriptional regulatory protein, C terminal 145_216 PF00072.19 Response regulator receiver domain 3_113 rstA b1608 RSTA_ECOLI 145698268 OmpR Exp_characterized 0.00062 PF00486.23 Transcriptional regulatory protein, C terminal 157_233 PF00072.19 Response regulator receiver domain 4_113 torR b0995 TORR_ECOLI 16128961 OmpR Exp_characterized 1.64e_06 PF00486.23 Transcriptional regulatory protein, C terminal 153_225 PF00072.19 Response regulator receiver domain 5_114 yedW b1969 YEDW_ECOLI 90111362 OmpR Prediction 0.00024 PF00486.23 Transcriptional regulatory protein, C terminal 142_218 PF00072.19 Response regulator receiver domain 3_112 ygeH b2852 YGEH_ECOLI 16130756 OmpR Prediction 0.0027 PF00486.23 Transcriptional regulatory protein, C terminal 26_101 null null null yqeI b2847 YQEI_ECOLI 16130751 OmpR Prediction 0.024 PF00486.23 Transcriptional regulatory protein, C terminal 23_103 PB000773 (PFam_B_773) null 181_263 bglJ b4366 BGLJ_ECOLI 145698349 LuxR/UhpA Exp_characterized 0.0018 PF00196.14 Bacterial regulatory proteins, luxR family 100_157 null null null csgD b1040 CSGD_ECOLI 16129003 LuxR/UhpA Exp_characterized 0.0026 PF00196.14 Bacterial regulatory proteins, luxR family 153_210 null null null dctR b3507 DCTR_ECOLI 16129152 LuxR/UhpA Prediction 0.01 PF00196.14 Bacterial regulatory proteins, luxR family 113_170 null null null evgA b2369 EVGA_ECOLI 16130301 LuxR/UhpA Exp_characterized 0.0022 PF00196.14 Bacterial regulatory proteins, luxR family 141_198 PF00072.19 Response regulator receiver domain 3_114 fimZ b0535 FIMZ_ECOLI 16128519 LuxR/UhpA Prediction 0.0035 PF00196.14 Bacterial regulatory proteins, luxR family 147_204 PF00072.19 Response regulator receiver domain 6_118 gadE b3512 GADE_ECOLI 16131384 LuxR/UhpA Exp_characterized 0.0094 PF00196.14 Bacterial regulatory proteins, luxR family 115_169 null null null malT b3418 MALT_ECOLI 16131294 LuxR/UhpA Exp_characterized 2.11e_12 PF00196.14 Bacterial regulatory proteins, luxR family 833_890 null null null matA b0294 MATA_ECOLI 16128279 LuxR/UhpA Prediction 0.01 PF00196.14 Bacterial regulatory proteins, luxR family 142_190 null null null narL b1221 NARL_ECOLI 16129184 LuxR/UhpA Exp_characterized 6.9e_07 PF00196.14 Bacterial regulatory proteins, luxR family 153_210 PF00072.19 Response regulator receiver domain 9_121 narP b2193 NARP_ECOLI 16130130 LuxR/UhpA Exp_characterized 7.76e_05 PF00196.14 Bacterial regulatory proteins, luxR family 151_208 PF00072.19 Response regulator receiver domain 9_121 rcsA b1951 RCSA_ECOLI 16129898 LuxR/UhpA Exp_characterized 0.011 PF00196.14 Bacterial regulatory proteins, luxR family 135_192 null null null rcsB b2217 RCSB_ECOLI 16130154 LuxR/UhpA Exp_characterized 0.0029 PF00196.14 Bacterial regulatory proteins, luxR family 148_205 PF00072.19 Response regulator receiver domain 6_121 sdiA b1916 SDIA_ECOLI 16129863 LuxR/UhpA Exp_characterized 0.0042 PF00196.14 Bacterial regulatory proteins, luxR family 177_234 PF03472.10 Autoinducer binding domain 22_165 uhpA b3669 UHPA_ECOLI 16131539 LuxR/UhpA Exp_characterized 0.001 PF00196.14 Bacterial regulatory proteins, luxR family 135_192 PF00072.19 Response regulator receiver domain 4_113 uvrY b1914 UVRY_ECOLI 16129861 LuxR/UhpA Prediction 0.0017 PF00196.14 Bacterial regulatory proteins, luxR family 147_204 PF00072.19 Response regulator receiver domain 4_116 yahA b0315 YAHA_ECOLI 16128300 LuxR/UhpA Prediction 0.0016 PF00196.14 Bacterial regulatory proteins, luxR family 23_77 PF00563.15 EAL domain 111_346 yhjB b3520 YHJB_ECOLI 16131392 LuxR/UhpA Prediction 0.003 PF00196.14 Bacterial regulatory proteins, luxR family 139_196 null null null yjjQ b4365 YJJQ_ECOLI 16132186 LuxR/UhpA Prediction 0.0043 PF00196.14 Bacterial regulatory proteins, luxR family 152_208 null null null yqeH b2846 YQEH_ECOLI 90111495 LuxR/UhpA Prediction 0.04 PF00196.14 Bacterial regulatory proteins, luxR family 149_197 null null null atoC b2220 ATOC_ECOLI 16130157 EBP Exp_characterized 5.06e_07 null null null PF00072.19 Response regulator receiver domain 7_117 dhaR b1201 DHAR_ECOLI 90111234 EBP Exp_characterized 4.85e_05 PF01590.21 GAF domain 53_189 PF00989.19 PAS fold 203_306 fhlA b2731 FHLA_ECOLI 16130638 EBP Exp_characterized 1.61e_06 null null null PF01590.21 GAF domain 202_344 fis b3261 FIS_ECOLI 16131149 EBP Exp_characterized 4.84e_06 null null null null null null hyfR b2491 HYFR_ECOLI 90111447 EBP Exp_characterized 6.28e_07 PB001956 (Pfam_B_1956) null 1_89 PF01590.21 GAF domain 169_311 norR b2709 NORR_ECOLI 90111481 EBP Exp_characterized 1.78e_06 null null null PF01590.21 GAF domain 21_157 glnG b3868 NTRC_ECOLI 16131708 EBP Exp_characterized 7.67e_07 null null null PF00072.19 Response regulator receiver domain 6_116 prpR b0330 PRPR_ECOLI 16128315 EBP Exp_characterized 2.4e_06 null null null PF06506.6 Propionate catabolism activator 28_202 pspF b1303 PSPF_ECOLI 90111246 EBP Exp_characterized 2.09e_06 null null null null null null rtcR b3422 RTCR_ECOLI 16131296 EBP Exp_characterized 1.91e_05 null null null PF06956.6 Regulator of RNA terminal phosphate cyclase 1_185 tyrR b1323 TYRR_ECOLI 16129284 EBP Exp_characterized 2.54e_06 null null null PF13188.1 PAS domain 81_148 glrR b2554 YFHA_ECOLI 16130479 EBP Exp_characterized 1.43e_06 null null null PF00072.19 Response regulator receiver domain 8_118 ygeV b2869 YGEV_ECOLI 16130771 EBP Prediction 1.46e_06 null null null PF13188.1 PAS domain 160_223 zraR b4004 ZRAR_ECOLI 16131834 EBP Exp_characterized 6.45e_07 null null null PF00072.19 Response regulator receiver domain 8_118 allR b0506 ALLR_ECOLI 16128490 IclR Exp_characterized 3.29e_08 PF09339.5 IclR helix_turn_helix domain 23_74 PF01614.13 Bacterial transcriptional regulator 139_264 iclR b4018 ICLR_ECOLI 90111675 IclR Exp_characterized 1.69e_08 PF09339.5 IclR helix_turn_helix domain 26_77 PF01614.13 Bacterial transcriptional regulator 143_269 kdgR b1827 KDGR_ECOLI 16129781 IclR Exp_characterized 3.96e_05 PF09339.5 IclR helix_turn_helix domain 15_65 PF01614.13 Bacterial transcriptional regulator 128_255 mhpR b0346 MHPR_ECOLI 145698223 IclR Exp_characterized 0.0046 PF09339.5 IclR helix_turn_helix domain 14_65 PF01614.13 Bacterial transcriptional regulator 129_259 yfaX b2248 RHMR_ECOLI 16130183 IclR Prediction 0.00015 PF09339.5 IclR helix_turn_helix domain 9_59 PF01614.13 Bacterial transcriptional regulator 121_248 yagI b0272 YAGI_ECOLI 16128257 IclR Prediction 5.08e_05 PF09339.5 IclR helix_turn_helix domain 6_57 PF01614.13 Bacterial transcriptional regulator 120_247 yiaJ b3574 YIAJ_ECOLI 16131445 IclR Exp_characterized 0.00025 PF09339.5 IclR helix_turn_helix domain 25_76 PF01614.13 Bacterial transcriptional regulator 142_269 yjhI b4299 YJHI_ECOLI 16132120 IclR Prediction 4.74e_05 null null null PF01614.13 Bacterial transcriptional regulator 121_248 cspA b3556 CSPA_ECOLI 16131427 Cold Exp_characterized 1.47e_05 PF00313.17 'Cold_shock' DNA_binding domain 5_70 null null null cspB b1557 CSPB_ECOLI 16129516 Cold Prediction 3.86e_05 PF00313.17 'Cold_shock' DNA_binding domain 5_70 null null null cspC b1823 CSPC_ECOLI 16129777 Cold Prediction 8.29e_05 PF00313.17 'Cold_shock' DNA_binding domain 4_69 null null null cspD b0880 CSPD_ECOLI 16128848 Cold Prediction 0.00024 PF00313.17 'Cold_shock' DNA_binding domain 2_67 null null null cspE b0623 CSPE_ECOLI 16128606 Cold Prediction 7.84e_05 PF00313.17 'Cold_shock' DNA_binding domain 4_69 null null null cspF b1558 CSPF_ECOLI 16129517 Cold Prediction 0.00082 PF00313.17 'Cold_shock' DNA_binding domain 5_70 null null null cspG b0990 CSPG_ECOLI 16128956 Cold Prediction 5.47e_05 PF00313.17 'Cold_shock' DNA_binding domain 5_70 null null null cspH b0989 CSPH_ECOLI 16128955 Cold Prediction 0.00077 PF00313.17 'Cold_shock' DNA_binding domain 5_70 null null null cspI b1552 CSPI_ECOLI 16129511 Cold Prediction 8.14e_05 PF00313.17 'Cold_shock' DNA_binding domain 5_70 null null null dicA b1570 DICA_ECOLI 16129529 HTH_3 Exp_characterized 0.00099 PF01381.17 Helix_turn_helix 12_66 null null null ydcQ b1438 HICB_ECOLI 145698257 HTH_3 _ _ 0.068 PF01381.17 Helix_turn_helix 82_136 PF03681.10 Uncharacterised protein family (UPF0150) 2_49 hipB b1508 HIPB_ECOLI 16129467 HTH_3 Exp_characterized 0.065 PF01381.17 Helix_turn_helix 17_70 null null null nadR b4390 NADR_ECOLI 90111746 HTH_3 Exp_characterized 1.75e_06 PF01381.17 Helix_turn_helix 7_61 PF13521.1 AAA domain 233_394 puuR b1299 PUUR_ECOLI 16129260 HTH_3 Prediction 0.044 PF01381.17 Helix_turn_helix 12_66 PF07883.6 Cupin domain 110_180 rodZ b2516 RODZ_ECOLI 16130441 HTH_3 Prediction 0.043 PF01381.17 Helix_turn_helix 19_57 PF13464.1 Domain of unknown function (DUF4115) 255_330 ybaQ b0483 YBAQ_ECOLI 90111140 HTH_3 Prediction 0.0042 PF01381.17 Helix_turn_helix 16_70 null null null ydaS b1357 YDAS_ECOLI 16129318 HTH_3 Prediction 0.027 PF01381.17 Helix_turn_helix 18_57 null null null ydcN b1434 YDCN_ECOLI 16129393 HTH_3 Prediction 0.0039 PF01381.17 Helix_turn_helix 12_66 PF07883.6 Cupin domain 102_173 yddM b1477 YDDM_ECOLI 145698261 HTH_3 Prediction 1.99e_05 PF01381.17 Helix_turn_helix 13_67 null null null yiaG b3555 YIAG_ECOLI 16131426 HTH_3 _ _ 0.03 PF01381.17 Helix_turn_helix 38_82 null null null cueR b0487 CUER_ECOLI 16128471 MerR Exp_characterized 4.66e_07 PF00376.18 MerR family regulatory protein 2_39 PF09278.6 MerR, DNA binding 44_108 mlrA b2127 MLRA_ECOLI 16130065 MerR Exp_characterized 0.0076 PF13411.1 MerR HTH family regulatory protein 4_73 null null null soxR b4063 SOXR_ECOLI 16131889 MerR Exp_characterized 0.002 PF00376.18 MerR family regulatory protein 13_49 PF09278.6 MerR, DNA binding 54_119 ycgE b1162 YCGE_ECOLI 16129125 MerR Prediction 0.022 PF13411.1 MerR HTH family regulatory protein 4_73 null null null zntR b3292 ZNTR_ECOLI 16131171 MerR Exp_characterized 1.31e_05 PF00376.18 MerR family regulatory protein 3_40 PF09278.6 MerR, DNA binding 45_110 marR b1530 MARR_ECOLI 90111289 MarR Exp_characterized 3.41e_07 PF01047.17 MarR family 38_96 null null null mprA b2684 MPRA_ECOLI 16130596 MarR Exp_characterized 0.0049 PF01047.17 MarR family 53_113 null null null nagC b0676 NAGC_ECOLI 16128652 MarR Exp_characterized 4.92e_06 PF01047.17 MarR family 18_67 PF00480.15 ROK family 90_274 slyA b1642 SLYA_ECOLI 90111310 MarR Exp_characterized 1.14e_06 PF01047.17 MarR family 29_88 null null null yebK b1853 HEXR_ECOLI 16129806 RpiR Prediction 0.011 PF01418.12 Helix_turn_helix domain, rpiR family 1_77 PF01380.17 SIS domain 124_253 murR b2427 MURR_ECOLI 16130352 RpiR Exp_characterized 0.0083 PF01418.12 Helix_turn_helix domain, rpiR family 1_77 PF01380.17 SIS domain 131_261 rpiR b4089 RPIR_ECOLI 90111685 RpiR Exp_characterized 0.088 PF01418.12 Helix_turn_helix domain, rpiR family 14_90 PF01380.17 SIS domain 137_267 yfhH b2561 YFHH_ECOLI 90111460 RpiR Prediction 0.0054 PF01418.12 Helix_turn_helix domain, rpiR family 1_77 PF01380.17 SIS domain 128_258 mak b0394 MAK_ECOLI 90111128 ROK Exp_characterized 8.89e_09 PF00480.15 ROK family 4_193 null null null dgsA b1594 MLC_ECOLI 16129552 ROK Exp_characterized 0.00014 PF00480.15 ROK family 89_274 null null null yphH b2550 YPHH_ECOLI 90111457 ROK 0.00074 PF00480.15 ROK family 85_267 null null null asnC b3743 ASNC_ECOLI 16131611 AsnC Exp_characterized 7.88e_06 PF13404.1 AsnC_type helix_turn_helix domain 6_47 PF01037.16 AsnC family 72_144 lrp b0889 LRP_ECOLI 16128856 AsnC Exp_characterized 0.0056 PF13412.1 Winged helix_turn_helix DNA_binding 12_59 PF01037.16 AsnC family 78_152 ybaO b0447 YBAO_ECOLI 90111137 AsnC Prediction 0.0039 PF13404.1 AsnC_type helix_turn_helix domain 2_43 PF01037.16 AsnC family 68_142 ihfA b1712 IHFA_ECOLI 16129668 IHF Exp_characterized 2.73e_06 PF00216.16 Bacterial DNA_binding protein 3_92 null null null ihfB b0912 IHFB_ECOLI 16128879 IHF Exp_characterized 2.46e_06 PF00216.16 Bacterial DNA_binding protein 1_91 null null null lsrR b1512 LSRR_ECOLI 16129471 Sugar_binding domain Exp_characterized 0.0002 PF04198.8 Putative sugar_binding domain 66_316 null null null yjhU b4295 YJHU_ECOLI 90111724 Sugar_binding domain Prediction 0.00023 PF04198.8 Putative sugar_binding domain 63_323 null null null hns b1237 HNS_ECOLI 16129198 HNS Exp_characterized 6.48e_05 PF00816.16 H_NS histone family 24_130 null null null stpA b2669 STPA_ECOLI 16130583 HNS Exp_characterized 0.00054 PF00816.16 H_NS histone family 24_129 null null null hipA b1507 HIPA_ECOLI 16129466 HipA Exp_characterized null PF07805.7 HipA_like N_terminal domain 150_238 PF07804.7 HipA_like C_terminal domain 249_332 yjjJ b4385 YJJJ_ECOLI 16132202 HipA Prediction null PF07805.7 HipA_like N_terminal domain 201_281 PF07804.7 HipA_like C_terminal domain 287_364 flhC b1891 FLHC_ECOLI 16129843 FlhC_like Exp_characterized 2.62e_08 PF05280.6 Flagellar transcriptional activator (FlhC) 1_176 null null null flhD b1892 FLHD_ECOLI 145698279 FlhD_like Exp_characterized 1.86e_06 PF05247.8 Flagellar transcriptional activator (FlhD) 1_104 null null null iscR b2531 ISCR_ECOLI 16130456 Rrf2 Exp_characterized 0.052 PF02082.15 Transcriptional regulator 1_83 null null null nsrR b4178 NSRR_ECOLI 16132000 Rrf2 Exp_characterized 0.077 PF02082.15 Transcriptional regulator 1_83 null null null nikR b3481 NIKR_ECOLI 16131353 CopG Exp_characterized 6.42e_06 PF01402.16 Ribbon_helix_helix protein, copG family 3_42 PF08753.6 NikR C terminal nickel binding domain 53_131 ybfE b0685 YBFE_ECOLI 90111159 CopG Prediction 0.034 PF01402.16 Ribbon_helix_helix protein, copG family 52_90 null null null arsR b3501 ARSR_ECOLI 16131373 ArsR Exp_characterized 0.008 PF01022.15 Bacterial regulatory protein, arsR family 15_62 null null null ygaV b2667 YGAV_ECOLI 16130581 ArsR Prediction 0.026 PF01022.15 Bacterial regulatory protein, arsR family 23_70 null null null crp b3357 CRP_ECOLI 16131236 CRP Exp_characterized 5.33e_07 PF00325.15 Bacterial regulatory proteins, crp family 166_197 PF00027.24 Cyclic nucleotide_binding domain 21_112 fnr b1334 FNR_ECOLI 16129295 CRP Exp_characterized 0.0071 PF00325.15 Bacterial regulatory proteins, crp family 193_224 PF00027.24 Cyclic nucleotide_binding domain 49_138 chpS b4224 CHPS_ECOLI 90111708 MazE Prediction 0.0075 PF04014.13 Antidote_toxin recognition MazE 6_51 null null null mazE b2783 MAZE_ECOLI 16130690 MazE Prediction 2.24e_05 PF04014.13 Antidote_toxin recognition MazE 7_52 null null null cnu b1625 CNU_ECOLI 16129583 HHA Prediction 0.00054 PF05321.6 Haemolysin expression modulating protein 8_68 null null null hha b0460 HHA_ECOLI 16128444 HHA Prediction 1.13e_05 PF05321.6 Haemolysin expression modulating protein 13_69 null null null mtlR b3601 MTLR_ECOLI 16131472 MtlR Exp_characterized 2.2e_05 PF05068.7 Mannitol repressor 2_189 null null null yggD b2929 YGGD_ECOLI 16130830 MtlR Prediction 2.52e_08 PF05068.7 Mannitol repressor 1_169 null null null yefM b2017 YEFM_ECOLI 90111372 YefM Exp_characterized 6.71e_06 PF02604.14 Antitoxin Phd_YefM, type II toxin_antitoxin system 1_74 null null null yafN b0232 YAFN_ECOLI 16128218 YefM Prediction 0.012 PF02604.14 Antitoxin Phd_YefM, type II toxin_antitoxin system 7_79 null null null hupA b4000 DBHA_ECOLI 16131830 IHF Exp_characterized 4.01e_06 PF00216.16 Bacterial DNA_binding protein 1_90 null null null hupB b0440 DBHB_ECOLI 16128425 IHF Exp_characterized 4.19e_06 PF00216.16 Bacterial DNA_binding protein 1_90 null null null fur b0683 FUR_ECOLI 16128659 Fur Exp_characterized 1.58e_05 PF01475.14 Ferric uptake regulator family 10_130 null null null zur b4046 ZUR_ECOLI 90111679 Fur Exp_characterized 0.045 PF01475.14 Ferric uptake regulator family 19_140 null null null aidB b4187 AIDB_ECOLI 162135915 AidB_like Exp_characterized 0.0037 PF02770.14 Acyl_CoA dehydrogenase, middle domain 181_233 PF00441.19 Acyl_CoA dehydrogenase, C_terminal domain 285_440 alpA b2624 ALPA_ECOLI 16130542 AlpA Exp_characterized null PF05930.7 Prophage CP4_57 regulatory protein (AlpA) 7_63 null null null pepA b4260 AMPA_ECOLI 16132082 Aminopeptidase Exp_characterized 1.17e_11 PF00883.16 Cytosol aminopeptidase family, catalytic domain 184_491 PF02789.12 Cytosol aminopeptidase family, N_terminal domain 19_147 argR b3237 ARGR_ECOLI 16131127 ArgR Exp_characterized 2.59e_05 PF01316.16 Arginine repressor, DNA binding domain 5_75 PF02863.13 Arginine repressor, C_terminal domain 81_151 birA b3973 BIRA_ECOLI 16131807 BirA Exp_characterized 5.87e_09 PF08279.7 HTH domain 8_59 PF03099.14 Biotin/lipoate A/B protein ligase family 83_208 bolA b0435 BOLA_ECOLI 90111135 BolA Exp_characterized 0.0012 PF01722.13 BolA_like protein 9_85 null null null caiF b0034 CAIF_ECOLI 90111079 CaiF Exp_characterized null PF07180.6 Protein of unknown function (DUF1401) 2_98 null null null cdaR b0162 CDAR_ECOLI 90111093 Cdar Exp_characterized null PF13556.1 PucR C_terminal helix_turn_helix domain 323_381 PF05651.8 Putative sugar diacid recognition 6_140 crl b0240 CRL_ECOLI 16128226 Crl Prediction null PF07417.7 Transcriptional regulator Crl 2_131 null null null dicC b1569 DICC_ECOLI 16129528 DicC Prediction 0.0083 PB000114 (Pfam_B_114) null 32_73 null null null dnaA b3702 DNAA_ECOLI 16131570 DnaA Exp_characterized 7.21e_06 PF11638.3 DnaA N_terminal domain 3_65 PF00308.13 Bacterial dnaA protein 132_350 dpiA b0620 DPIA_ECOLI 16128603 HTH_11 Exp_characterized 0.0037 PF12431.3 Transcriptional regulator 134_162 PF00072.19 Response regulator receiver domain 7_119 frvR b3897 FRVR_ECOLI 16131737 FrvR Prediction 0.0071 PF00359.17 Phosphoenolpyruvate_dependent sugar phosphotransferase system, EIIA 2 447_581 PF08279.7 HTH domain 5_60 gutM b2706 GUTM_ECOLI 16130613 GutM Exp_characterized null PF06923.6 Glucitol operon activator protein (GutM) 2_110 null null null higA b3082 HIGA_ECOLI 16130977 SinR Prediction 0.024 PF12844.2 Helix_turn_helix domain 82_138 null null null hycA b2725 HYCA_ECOLI 16130632 HycA Prediction null PF11046.3 Transcriptional repressor of hyc and hyp operons 1_149 null null null lexA b4043 LEXA_ECOLI 16131869 LexA Exp_characterized 5.25e_07 PF00717.18 Peptidase S24_like 114_182 PF01726.11 LexA DNA binding domain 1_65 metJ b3938 METJ_ECOLI 16131776 MetJ Exp_characterized 1.63e_06 PF01340.15 Met Apo_repressor, MetJ 2_105 null null null mntR b0817 MNTR_ECOLI 16128785 DtxR Exp_characterized 0.0015 PF01325.14 Iron dependent repressor, N_terminal DNA binding domain 35_92 PF02742.10 Iron dependent repressor, metal binding and dimerisation domain 95_154 mqsA b3021 MQSA_ECOLI 16130917 CxxCG_CxxCG_HTH Exp_characterized 0.056 PB000982 (Pfam_B_982) null 78_107 null null null mqsR b3022 MQSR_ECOLI 16130918 MqsR Exp_characterized null PB002110 (Pfam_B_2110) null 25_95 null null null nrdR b0413 NRDR_ECOLI 16128398 NrdR Exp_characterized null PF03477.11 ATP cone domain 49_137 null null null yeiL b2163 NSR_ECOLI 49176193 Cyclic nucleotide_binding domain Exp_characterized null PF00027.24 Cyclic nucleotide_binding domain 20_109 null ogrK b2082 OGRK_ECOLI 16130022 OgrK Prediction null PF04606.7 Ogr/Delta_like zinc finger 3_49 null null null paaX b1399 PAAX_ECOLI 16129360 PaaX Exp_characterized 0.088 PF08223.6 PaaX_like protein C_terminal domain 104_274 PF07848.7 PaaX_like protein 18_87 pspC b1306 PSPC_ECOLI 16129267 PspC Prediction null PF04024.7 PspC domain 7_69 null null null putA b1014 PUTA_ECOLI 16128980 PutA Exp_characterized 2.21e_07 PF01619.13 Proline dehydrogenase 228_574 PF00171.17 Aldehyde dehydrogenase family 654_1111 rcnR b2105 RCNR_ECOLI 16130043 RcnR_FrmR_like_DUF156 Exp_characterized null PF02583.12 Metal_sensitive transcriptional repressor 5_88 null null null relB b1564 RELB_ECOLI 16129523 RelB Exp_characterized null PF04221.7 RelB antitoxin 1_79 null null null relE b1563 RELE_ECOLI 16129522 RelE Exp_characterized 0.062 PF05016.9 Plasmid stabilisation system protein 5_85 null null null sfsA b0146 SFSA_ECOLI 16128139 SfsA Prediction null PF03749.8 Sugar fermentation stimulation protein 13_231 null null null sfsB b3188 SFSB_ECOLI 16131078 Nlp Prediction 0.00042 PF13693.1 Winged helix_turn_helix DNA_binding 7_85 null null null sgrR b0069 SGRR_ECOLI 16128063 MarR Exp_characterized 0.08 PF00496.17 Bacterial extracellular solute_binding proteins, family 5 Middle 163_502 PF12793.2 Sugar transport_related sRNA regulator N_term 5_118 alaS b2697 SYA_ECOLI 16130604 Class II aminoacyl_tRNA synthetase Exp_characterized 2.57e_08 PF07973.9 Threonyl and Alanyl tRNA synthetase second additional domain 653_696 PF01411.14 tRNA synthetases class II (A) 7_556 tdcR b3119 TDCR_ECOLI 162135908 TdcR Exp_characterized null PB001304 (PFam_B_1304) null 1_70 null null null trpR b4393 TRPR_ECOLI 16132210 TrpR Exp_characterized 2.31e_06 PF01371.14 Trp repressor protein 17_104 null null null ybiI b0803 YBII_ECOLI 16128771 DksA Prediction 0.038 PF01258.12 Prokaryotic dksA/traR C4_type zinc finger 31_69 null null null ybcL b0927 YCBL_ECOLI 16128894 Metallo_beta Prediction 0.013 PF00753.22 Metallo_beta_lactamase superfamily 8_192 null null null ydcR b1439 YDCR_ECOLI 16129398 GntR Prediction 0.00014 PF00155.16 Aminotransferase class I and II 120_458 PF00392.16 Bacterial regulatory proteins, gntR family 3_66 ppsR b1703 YDIA_ECOLI 16129659 Kinase_PPPase Prediction 0.0094 PF03618.9 Kinase/pyrophosphorylase 9_267 null null null yehT b2125 YEHT_ECOLI 90111392 LytTR Prediction 0.0022 PF04397.10 LytTr DNA_binding domain 143_238 PF00072.19 Response regulator receiver domain 4_113 yeiI b2160 YEII_ECOLI 16130098 Kinase Prediction 0.0014 PF13412.1 Winged helix_turn_helix DNA_binding 1_48 PF00294.19 pfkB family carbohydrate kinase 57_352 ymfL b1147 YMFL_ECOLI 145698241 YmfL Prediction null PB000452 (Pfam_B_452) null 13_172 null null null yoeB b4539 YOEB_ECOLI 94541116 YoeB/Txe_like Exp_characterized 6.6e_06 PF06769.8 Plasmid encoded toxin Txe 5_84 null null null yqjI b3071 YQJI_ECOLI 16130966 PadR Exp_characterized 0.067 PF03551.9 Transcriptional regulator PadR_like family 67_137 null null null ytfH b4212 YTFH_ECOLI 90111706 HxlR_like Prediction 3.58e_06 PF01638.12 HxlR_like helix_turn_helix 28_118 null null null