Genes encoding EBPs have been found in the following complete genome sequences:

Species Enhancer binding protein Predicted targets (based on adjacency of EBP-encoding gene to RpoN-binding site)
Agrobacterium tumefaciens AGR_C_2665 ATU1446 NTRC (domains) -
Agrobacterium tumefaciens AGR_C_178 ATU0114 DCTD (domains) -
Agrobacterium tumefaciens AGR_C_2669 ATU1448 NTRX (domains) -
Agrobacterium tumefaciens AGR_L_3046 ATU3296 DCTD (domains) ATU3298
Agrobacterium tumefaciens AGR_L_2141 ATU3764 (domains) ATU3758
Agrobacterium tumefaciens AGR_L_278 ATU4741 (domains) ATU4740 ATU4742 ATU4744
Aquifex aeolicus AQ_1117 NTRC1 (domains) -
Aquifex aeolicus AQ_164 NTRC4 (domains) -
Aquifex aeolicus AQ_1792 NTRC2 (domains) -
Aquifex aeolicus AQ_218 NIFA (domains) AQ_211
Aquifex aeolicus AQ_230 NTRC3 (domains) AQ_232
Bacillus halodurans BH0537 (domains) BH0538 BH0533
Bacillus halodurans BH0992 (domains) BH0991
Bacillus halodurans ACIR BH1826 (domains) BH1822
Bacillus halodurans BH1879 (domains) BH1880
Bacillus halodurans BH2739 (domains) BH2740 BH2736
Bacillus halodurans BH2766 (domains) BH2765
Bacillus halodurans ATOC BH2948 (domains) BH2947
Bacillus halodurans BH3899 (domains) BH3898
Bacillus halodurans BH3944 ROCR (domains) BH3948 BH3943 BH3938
Borrelia burgdorferi BB0763 (domains) BB0771
Bradyrhizobium japonicum BLL6925 HOXA (domains) -
Bradyrhizobium japonicum BLR2037 NIFA (domains) -
Brucella melitensis BMEI0866 (domains) -
Brucella melitensis BMEI0868 (domains) -
Brucella melitensis BMEII0011 (domains) BMEII0010 BMEII0010
Campylobacter jejuni CJ1024C (domains) CJ1026 CJ1029 CJ1026 CJ1029 CJ1026 CJ1029
Caulobacter crescentus CC0909 FLBD FTRC (domains) CC0901
Caulobacter crescentus CC1741 (domains) CC1748 CC1736
Caulobacter crescentus CC1743 (domains) CC1748 CC1736
Caulobacter crescentus CC3315 (domains) CC3312
Chlamydia muridarum TC0753 (domains) -
Chlamydia pneumoniae CP0162 (domains) CP0165
Chlamydia pneumoniae ATOC CPN0586 (domains) CPN0583
Chlamydia trachomatis ATOC CT468 (domains) CT466 CT466
Chlorobium tepidum CT0108 (domains) CT0107
Chlorobium tepidum CT1497 (domains) CT1488
Chlorobium tepidum CT1529 NIFA (domains) CT1533
Clostridium acetobutylicum CAC0382 (domains) CAC0383
Clostridium acetobutylicum CAC0459 (domains) CAC0458 CAC0462
Clostridium acetobutylicum CAC3088 (domains) CAC3087
Clostridium perfringens CPE2358 (domains) CPE2357
Escherichia coli B0330 PRPR (domains) B0331
Escherichia coli B1201 DHAR (domains) B1205 B1201
Escherichia coli B1303 PSPF (domains) B1304 B1296 B1300
Escherichia coli B1323 TYRR (domains) B1326 B1315 B1328 B1317
Escherichia coli ATOC AZ B2220 (domains) B2217 B2221
Escherichia coli B2491 HYFR (domains) B2500 B2499
Escherichia coli B2554 ECS3420 YFHA Z3830 (domains) B2556 B2545
Escherichia coli B2709 (domains) B2715 B2710 B2713
Escherichia coli B2731 FHLA (domains) B2738 B2726 B2725
Escherichia coli B2869 YGEV (domains) B2870 B2878 B2878 B2866
Escherichia coli B3422 RTCR (domains) B3421
Escherichia coli B3868 ECS4790 GLNG GLNT NTRC Z5404 (domains) B3870
Escherichia coli B4004 HYDG ZRAR (domains) B4003 B4006 B4011 B3995 B4000 B4011 B4006
Escherichia coli O157 ECS0384 PRPR Z0426 (domains) ECS0385
Escherichia coli O157 ECS1880 PSPF Z2484 (domains) ECS1881 ECS1873
Escherichia coli O157 ECS1902 TYRR Z2454 (domains) ECS1907
Escherichia coli O157 ECS3353 (domains) ECS3361
Escherichia coli O157 ECS3565 Z4017 (domains) ECS3566 ECS3560 ECS3569
Escherichia coli O157 ECS3587 FHLA Z4040 (domains) ECS3582 ECS3581
Escherichia coli O157 ECS3742 YGEV Z4208 (domains) ECS3743 ECS3751 ECS3751 ECS3739
Escherichia coli O157 ECS4265 RTCR Z4780 (domains) ECS4264
Escherichia coli O157 ECS4927 HYDG Z5580 ZRAR (domains) ECS4926 ECS4929 ECS4918 ECS4923 ECS4929
Fusobacterium nucleatum FN1321 (domains) -
Fusobacterium nucleatum FN1831 (domains) -
Haemophilus influenzae HI0410 TYRR (domains) -
Helicobacter pylori HP0703 (domains) -
Helicobacter pylori J99 JHP0643 (domains) -
Listeria innocua LIN0778 (domains) LIN0777
Listeria innocua LIN1832 (domains) LIN1831
Listeria innocua LIN2276 (domains) LIN2275
Listeria monocytogenes LMO0785 MANR (domains) LMO0784
Listeria monocytogenes LMO1721 (domains) LMO1720
Listeria monocytogenes LMO2173 (domains) LMO2172
Neisseria meningitidis NMA0159 (domains) -
Neisseria meningitidis NMB0115 (domains) -
Pasteurella multocida PM0908 TYRR (domains) PM0916 PM0916 PM0916
Pasteurella multocida PM1460 (domains) -
Pseudomonas aeruginosa PA0873 PHHR (domains) -
Pseudomonas aeruginosa FLEQ PA1097 (domains) PA1100 PA1098 PA1094
Pseudomonas aeruginosa FLER PA1099 (domains) PA1100 PA1098 PA1094
Pseudomonas aeruginosa PA1196 (domains) PA1189 PA1195 PA1202
Pseudomonas aeruginosa PA1335 (domains) PA1342 PA1343
Pseudomonas aeruginosa PA1663 (domains) PA1656 PA1656 PA1665
Pseudomonas aeruginosa PA1945 (domains) -
Pseudomonas aeruginosa PA2005 (domains) PA2004 PA2010
Pseudomonas aeruginosa PA2354 (domains) PA2357 PA2346
Pseudomonas aeruginosa PA2359 (domains) PA2357
Pseudomonas aeruginosa PA2449 (domains) PA2446
Pseudomonas aeruginosa PA2665 (domains) PA2664
Pseudomonas aeruginosa PA3932 (domains) -
Pseudomonas aeruginosa PA4021 (domains) PA4022 PA4023 PA4026 PA4027
Pseudomonas aeruginosa PA4147 (domains) PA4148 PA4139
Pseudomonas aeruginosa PA4547 PILR (domains) -
Pseudomonas aeruginosa PA4581 RTCR (domains) PA4582
Pseudomonas aeruginosa CBRB PA4726 (domains) PA4727 PA4726
Pseudomonas aeruginosa NTRC PA5125 (domains) PA5119 PA5124
Pseudomonas aeruginosa PA5166 (domains) PA5170 PA5167
Pseudomonas aeruginosa ALGB PA5483 (domains) PA5482 PA5479
Pseudomonas aeruginosa PA5511 (domains) -
Ralstonia solanacearum RS00654 RSC0222 RTCR (domains) RSC0223 RSC0223
Ralstonia solanacearum DCTD2 RS03299 RSC0332 (domains) RSC0330 RSC0341 RSC0340 RSC0340
Ralstonia solanacearum RS05718 RSC1186 (domains) -
Ralstonia solanacearum NTRC RS02778 RSC1261 (domains) RSC1258 RSC1262
Ralstonia solanacearum PEHR RS00298 RSC2807 (domains) RSC2804
Ralstonia solanacearum RS00474 RSC3129 (domains) RSC3128 RSC3137 RSC3135 RSC3122
Ralstonia solanacearum DCTD1 RS01981 RSP0009 (domains) RSP0006 RSP0005 RSP0001 RSP0007
Ralstonia solanacearum PRPR RS02999 RSP0123 (domains) -
Ralstonia solanacearum RS05195 RSP0228 (domains) RSP0229 RSP0219 RSP0228 RSP0219
Ralstonia solanacearum RS02290 RSP0959 (domains) RSP0958 RSP0957
Ralstonia solanacearum RS02586 RSP1079 (domains) RSP1076
Ralstonia solanacearum RS02226 RSP1667 (domains) RSP1674 RSP1671 RSP1666 RSP1676 RSP1668 RSP1674 RSP1670
Ralstonia solanacearum RS02227 RSP1668 (domains) RSP1674 RSP1671 RSP1666 RSP1676 RSP1668 RSP1674 RSP1670
Rhizobium loti MLL3001 (domains) -
Rhizobium loti MLL5837 (domains) MLL5840 MLL5837
Rhizobium loti MLL5857 (domains) MLL5862 MLL5855
Rhizobium loti MLL9384 (domains) -
Rhizobium loti MLR0398 (domains) MLR0399
Rhizobium loti MLR0400 (domains) MLR0399
Rhizobium loti MLR5842 (domains) MLR5848
Rhizobium loti MLR7239 (domains) MLR7238
Rhizobium meliloti FIXD NIFA RA0443 SMA0815 (domains) SMA0822 SMA0824 SMA0814 SMA0822 SMA0810 SMA0809
Rhizobium meliloti RB0102 SMB20102 (domains) SMB20103 SMB20103
Rhizobium meliloti DCTD RB1525 SMB20613 (domains) SMB20611 SMB20622
Rhizobium meliloti RB0865 SMB21200 (domains) -
Rhizobium meliloti NTRC R01459 SMC01043 (domains) SMC01050 SMC01052
Rhizobium meliloti NTRX R01461 SMC01045 (domains) SMC01050 SMC01052
Rhizobium meliloti R02795 SMC04011 TACA (domains) SMC04019
Rickettsia conorii NTRX RC0849 (domains) -
Rickettsia prowazekii RP562 (domains) -
Salmonella typhi PRPR STY0399 (domains) STY0400
Salmonella typhi STY0703 (domains) STY0710 STY0700
Salmonella typhi STY1370 (domains) STY1371
Salmonella typhi STM1683 STY1378 TYRR (domains) STY1371
Salmonella typhi STY2591 (domains) STY2590 STY2584 STY2585
Salmonella typhi PGTA STY2633 (domains) STY2637
Salmonella typhi STY2809 (domains) STY2811
Salmonella typhi STY2961 (domains) STY2962 STY2965
Salmonella typhi STY2981 (domains) STY2976 STY2975
Salmonella typhi HYDG STY3711 ZRAR (domains) STY3713 STY3712 STY3709 STY3720 STY3715 STY3706 STY3709
Salmonella typhi STY3876 (domains) STY3874
Salmonella typhimurium PRPR STM0367 (domains) STM0368
Salmonella typhimurium STM0571 (domains) STM0577 STM0580
Salmonella typhimurium STM0652 (domains) STM0649
Salmonella typhimurium STM1683 STY1378 TYRR (domains) STM1690
Salmonella typhimurium PSPF STM1691 (domains) STM1690
Salmonella typhimurium STM2361 (domains) STM2360 STM2354 STM2355
Salmonella typhimurium PGTA STM2396 (domains) STM2390 STM2399
Salmonella typhimurium STM2562 YFHA (domains) STM2564
Salmonella typhimurium STM2839 (domains) STM2840 STM2843
Salmonella typhimurium FHLA STM2859 (domains) STM2854 STM2853
Salmonella typhimurium RTCR STM3522 (domains) STM3521 STM3522 STM3531
Salmonella typhimurium STM3773 (domains) STM3772
Salmonella typhimurium GLNG NTRC STM4005 (domains) -
Salmonella typhimurium HYDG STM4174 STMF1 ZRAR (domains) STM4172 STM4173 STM4176 STM4165 STM4170 STM4176
Salmonella typhimurium STM4534 (domains) STM4535 STM4533 STM4534 STM4539
Thermoanaerobacter tengcongensis PSPF TTE0180 (domains) TTE0181 TTE0180
Thermoanaerobacter tengcongensis ATOC TTE0191 (domains) TTE0192
Thermoanaerobacter tengcongensis PSPF6 TTE0268 (domains) TTE0269
Thermoanaerobacter tengcongensis PSPF7 TTE0331 (domains) TTE0332 TTE0334
Thermoanaerobacter tengcongensis PSPF2 TTE0550 (domains) TTE0544 TTE0551
Thermoanaerobacter tengcongensis TTE0687 (domains) TTE0688
Thermoanaerobacter tengcongensis PSPF3 TTE0717 (domains) TTE0718
Thermoanaerobacter tengcongensis PSPF4 TTE0825 (domains) TTE0824
Thermoanaerobacter tengcongensis PSPF5 TTE1710 (domains) TTE1709 TTE1718 TTE1719
Thermoanaerobacter tengcongensis ATOC2 TTE1998 (domains) TTE2004 TTE1997
Treponema pallidum TP0082 (domains) TP0083 TP0091
Treponema pallidum TP0519 (domains) TP0519
Vibrio cholerae VC0665 (domains) -
Vibrio cholerae VC1021 (domains) VC1020 VC1024
Vibrio cholerae VC1308 (domains) VC1301 VC1313 VC1305
Vibrio cholerae VC1522 (domains) VC1516 VC1523 VC1518
Vibrio cholerae VC1679 (domains) VC1678 VC1679
Vibrio cholerae VC1817 (domains) -
Vibrio cholerae VC1926 (domains) VC1929
Vibrio cholerae VC2135 (domains) VC2136 VC2134 VC2128
Vibrio cholerae VC2137 (domains) VC2136 VC2134 VC2128
Vibrio cholerae VC2749 (domains) VC2747
Vibrio cholerae VCA0117 (domains) -
Vibrio cholerae VCA0142 (domains) VCA0144 VCA0134 VCA0134
Vibrio cholerae VCA0182 (domains) VCA0183
Vibrio cholerae VCA0704 (domains) -
Xanthomonas axonopodis NTRC XAC0208 (domains) XAC0204
Xanthomonas axonopodis NTRC XAC0226 (domains) XAC0231 XAC0227 XAC0218 XAC0224 XAC0232
Xanthomonas axonopodis XAC0654 (domains) XAC0648 XAC0645
Xanthomonas axonopodis FLBD XAC0845 (domains) XAC0838 XAC0836
Xanthomonas axonopodis PRPR XAC1136 (domains) XAC1137
Xanthomonas axonopodis FLEQ XAC1967 (domains) XAC1966 XAC1974
Xanthomonas axonopodis XAC3026 (domains) XAC3030 XAC3029 XAC3020
Xanthomonas axonopodis PILR XAC3238 (domains) XAC3241 XAC3238 XAC3229 XAC3233 XAC3241
Xanthomonas axonopodis STYS XAC3643 (domains) XAC3638