Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Collection of regulogs in Pasteurellales taxonomic group

General statistics
Genomes 9
TF regulogs 31
TF regulons 181
TF binding sites 950
RNA regulogs 11
RNA regulons 82
RNA sites 112

This collection involves all regulons that were tentatively predicted by applying integrative comparative genomic approach to a single taxonomic group of closely-related genomes. To infer the regulons operated by transcription factors (TFs), we combined the identification of TF binding sites and cross-genome comparison of regulons with the analysis of the genomic and functional context of candidate target genes. To infer the regulons operated by regulatory RNAs such as riboswitches, we identified candidate RNA regulatory elements using HMM profiles and further analyzed their genomic and functional context.

Studied genomes and reconstructed regulon statistics
TF RNA Total
Genomes Regulons Sites Regulons Sites Regulons Sites
Actinobacillus pleuropneumoniae serovar 7 str. AP76 18 117 9 13 27 130
Actinobacillus succinogenes 130Z 21 107 8 11 29 118
Aggregatibacter aphrophilus NJ8700 21 113 10 16 31 129
Haemophilus ducreyi 35000HP 13 63 7 10 20 73
Haemophilus influenzae Rd KW20 21 110 11 16 32 126
Haemophilus parasuis SH0165 19 79 9 11 28 90
Haemophilus somnus 2336 20 98 8 10 28 108
Mannheimia succiniciproducens MBEL55E 25 125 10 13 35 138
Pasteurella multocida subsp. multocida str. Pm70 23 138 10 12 33 150
Genomic distribution of regulons
Family Type Regulator Function
AraC TF RhaS
1 RhaS

Mannheimia succiniciproducens MBEL55E
Rhamnose utilization
ArgR TF ArgR
3 ArgR

Haemophilus influenzae Rd KW20
2 ArgR

Aggregatibacter aphrophilus NJ8700
6 ArgR

Pasteurella multocida subsp. multocida str. Pm70
6 ArgR

Mannheimia succiniciproducens MBEL55E
7 ArgR

Actinobacillus succinogenes 130Z
2 ArgR

Haemophilus somnus 2336
5 ArgR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
4 ArgR

Haemophilus ducreyi 35000HP
3 ArgR

Haemophilus parasuis SH0165
Arginine biosynthesis
DeoR TF AgaR
1 AgaR

Haemophilus parasuis SH0165
N-acetylgalactosamine utilization
FUR TF Fur
12 Fur

Haemophilus influenzae Rd KW20
12 Fur

Aggregatibacter aphrophilus NJ8700
16 Fur

Pasteurella multocida subsp. multocida str. Pm70
5 Fur

Mannheimia succiniciproducens MBEL55E
4 Fur

Actinobacillus succinogenes 130Z
8 Fur

Haemophilus somnus 2336
16 Fur

Actinobacillus pleuropneumoniae serovar 7 str. AP76
7 Fur

Haemophilus ducreyi 35000HP
6 Fur

Haemophilus parasuis SH0165
Iron homeostasis
GntR/MocR TF PdxR
1 PdxR

Pasteurella multocida subsp. multocida str. Pm70
1 PdxR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 PdxR

Haemophilus ducreyi 35000HP
Pyridoxine biosynthesis
GntR/Others TF FadR
1 FadR

Haemophilus influenzae Rd KW20
2 FadR

Aggregatibacter aphrophilus NJ8700
2 FadR

Pasteurella multocida subsp. multocida str. Pm70
2 FadR

Mannheimia succiniciproducens MBEL55E
2 FadR

Actinobacillus succinogenes 130Z
3 FadR

Haemophilus somnus 2336
2 FadR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 FadR

Haemophilus ducreyi 35000HP
1 FadR

Haemophilus parasuis SH0165
Fatty acid degradation
TF UxuR
2 UxuR

Haemophilus influenzae Rd KW20
2 UxuR

Mannheimia succiniciproducens MBEL55E
3 UxuR

Actinobacillus succinogenes 130Z
5 UxuR

Haemophilus somnus 2336
Glucuronate utilization
IclR TF KdgR
6 KdgR

Mannheimia succiniciproducens MBEL55E
6 KdgR

Actinobacillus succinogenes 130Z
Pectin and polygalacturonate utlization
LacI TF FruR
1 FruR

Aggregatibacter aphrophilus NJ8700
1 FruR

Mannheimia succiniciproducens MBEL55E
1 FruR

Actinobacillus succinogenes 130Z
Fructose utilization
TF GalR
3 GalR

Haemophilus influenzae Rd KW20
3 GalR

Aggregatibacter aphrophilus NJ8700
3 GalR

Pasteurella multocida subsp. multocida str. Pm70
3 GalR

Mannheimia succiniciproducens MBEL55E
2 GalR

Haemophilus somnus 2336
Galactose utilization
TF GntR
2 GntR

Aggregatibacter aphrophilus NJ8700
2 GntR

Pasteurella multocida subsp. multocida str. Pm70
2 GntR

Mannheimia succiniciproducens MBEL55E
2 GntR

Actinobacillus succinogenes 130Z
2 GntR

Haemophilus somnus 2336
2 GntR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 GntR

Haemophilus parasuis SH0165
Gluconate utilization
TF PurR
8 PurR

Haemophilus influenzae Rd KW20
9 PurR

Aggregatibacter aphrophilus NJ8700
9 PurR

Pasteurella multocida subsp. multocida str. Pm70
10 PurR

Mannheimia succiniciproducens MBEL55E
9 PurR

Actinobacillus succinogenes 130Z
7 PurR

Haemophilus somnus 2336
10 PurR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
5 PurR

Haemophilus ducreyi 35000HP
10 PurR

Haemophilus parasuis SH0165
Purine metabolism
TF RbsR
1 RbsR

Haemophilus influenzae Rd KW20
1 RbsR

Pasteurella multocida subsp. multocida str. Pm70
1 RbsR

Actinobacillus succinogenes 130Z
1 RbsR

Haemophilus somnus 2336
1 RbsR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 RbsR

Haemophilus parasuis SH0165
Ribose utilization
TF SgaR
2 SgaR

Mannheimia succiniciproducens MBEL55E
Ascorbate utilization
LexA TF LexA
9 LexA

Haemophilus influenzae Rd KW20
9 LexA

Aggregatibacter aphrophilus NJ8700
9 LexA

Pasteurella multocida subsp. multocida str. Pm70
8 LexA

Mannheimia succiniciproducens MBEL55E
8 LexA

Actinobacillus succinogenes 130Z
8 LexA

Haemophilus somnus 2336
7 LexA

Actinobacillus pleuropneumoniae serovar 7 str. AP76
8 LexA

Haemophilus ducreyi 35000HP
7 LexA

Haemophilus parasuis SH0165
SOS response
LuxR TF NarP
9 NarP

Haemophilus influenzae Rd KW20
14 NarP

Aggregatibacter aphrophilus NJ8700
10 NarP

Pasteurella multocida subsp. multocida str. Pm70
17 NarP

Mannheimia succiniciproducens MBEL55E
14 NarP

Actinobacillus succinogenes 130Z
7 NarP

Haemophilus somnus 2336
18 NarP

Actinobacillus pleuropneumoniae serovar 7 str. AP76
10 NarP

Haemophilus ducreyi 35000HP
Nitrate and nitrite respiration
TF TtrR
2 TtrR

Pasteurella multocida subsp. multocida str. Pm70
2 TtrR

Haemophilus somnus 2336
Tetrathionate reduction
LysR TF MetR
5 MetR

Haemophilus influenzae Rd KW20
4 MetR

Aggregatibacter aphrophilus NJ8700
4 MetR

Pasteurella multocida subsp. multocida str. Pm70
5 MetR

Mannheimia succiniciproducens MBEL55E
2 MetR

Actinobacillus succinogenes 130Z
3 MetR

Haemophilus somnus 2336
7 MetR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 MetR

Haemophilus parasuis SH0165
Methionine biosynthesis
MerR TF CadR-PbrR
1 CadR-PbrR

Pasteurella multocida subsp. multocida str. Pm70
1 CadR-PbrR

Mannheimia succiniciproducens MBEL55E
1 CadR-PbrR

Haemophilus somnus 2336
1 CadR-PbrR

Haemophilus parasuis SH0165
Lead resistance; Cadmium resistance
TF CueR
2 CueR

Haemophilus influenzae Rd KW20
2 CueR

Aggregatibacter aphrophilus NJ8700
1 CueR

Pasteurella multocida subsp. multocida str. Pm70
2 CueR

Mannheimia succiniciproducens MBEL55E
2 CueR

Actinobacillus succinogenes 130Z
2 CueR

Haemophilus somnus 2336
2 CueR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 CueR

Haemophilus parasuis SH0165
Copper resistance
TF NimR
2 NimR

Haemophilus influenzae Rd KW20
1 NimR

Aggregatibacter aphrophilus NJ8700
2 NimR

Mannheimia succiniciproducens MBEL55E
2 NimR

Actinobacillus succinogenes 130Z
Nickel homeostasis
TF NmlR
2 NmlR

Haemophilus influenzae Rd KW20
2 NmlR

Mannheimia succiniciproducens MBEL55E
Carbonyl stress response
MetJ TF MetJ
5 MetJ

Haemophilus influenzae Rd KW20
4 MetJ

Aggregatibacter aphrophilus NJ8700
6 MetJ

Pasteurella multocida subsp. multocida str. Pm70
5 MetJ

Mannheimia succiniciproducens MBEL55E
4 MetJ

Actinobacillus succinogenes 130Z
5 MetJ

Haemophilus somnus 2336
3 MetJ

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 MetJ

Haemophilus ducreyi 35000HP
5 MetJ

Haemophilus parasuis SH0165
Methionine metabolism; Methionine biosynthesis
ModE TF ModE
5 ModE

Haemophilus influenzae Rd KW20
4 ModE

Aggregatibacter aphrophilus NJ8700
4 ModE

Pasteurella multocida subsp. multocida str. Pm70
3 ModE

Mannheimia succiniciproducens MBEL55E
3 ModE

Actinobacillus succinogenes 130Z
2 ModE

Haemophilus parasuis SH0165
Molybdenum homeostasis
NrdR TF NrdR
2 NrdR

Haemophilus influenzae Rd KW20
2 NrdR

Aggregatibacter aphrophilus NJ8700
2 NrdR

Pasteurella multocida subsp. multocida str. Pm70
2 NrdR

Mannheimia succiniciproducens MBEL55E
2 NrdR

Actinobacillus succinogenes 130Z
2 NrdR

Haemophilus somnus 2336
3 NrdR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 NrdR

Haemophilus ducreyi 35000HP
2 NrdR

Haemophilus parasuis SH0165
Deoxyribonucleotide biosynthesis
ROK TF NagC
5 NagC

Aggregatibacter aphrophilus NJ8700
9 NagC

Pasteurella multocida subsp. multocida str. Pm70
N-acetylglucosamine utilization
RpiR TF SiaR
2 SiaR

Haemophilus influenzae Rd KW20
2 SiaR

Aggregatibacter aphrophilus NJ8700
3 SiaR

Pasteurella multocida subsp. multocida str. Pm70
3 SiaR

Haemophilus somnus 2336
2 SiaR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 SiaR

Haemophilus ducreyi 35000HP
3 SiaR

Haemophilus parasuis SH0165
Sialic acid utilization
Rrf2 TF IscR
2 IscR

Haemophilus influenzae Rd KW20
3 IscR

Aggregatibacter aphrophilus NJ8700
3 IscR

Pasteurella multocida subsp. multocida str. Pm70
3 IscR

Mannheimia succiniciproducens MBEL55E
3 IscR

Actinobacillus succinogenes 130Z
3 IscR

Haemophilus somnus 2336
2 IscR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 IscR

Haemophilus ducreyi 35000HP
1 IscR

Haemophilus parasuis SH0165
Iron-sulfur cluster biogenesis
TetR TF FabR
2 FabR

Haemophilus influenzae Rd KW20
3 FabR

Aggregatibacter aphrophilus NJ8700
2 FabR

Pasteurella multocida subsp. multocida str. Pm70
3 FabR

Mannheimia succiniciproducens MBEL55E
2 FabR

Actinobacillus succinogenes 130Z
2 FabR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 FabR

Haemophilus ducreyi 35000HP
2 FabR

Haemophilus parasuis SH0165
Fatty acid biosynthesis
TrpR TF TrpR
5 TrpR

Haemophilus influenzae Rd KW20
4 TrpR

Aggregatibacter aphrophilus NJ8700
5 TrpR

Pasteurella multocida subsp. multocida str. Pm70
5 TrpR

Mannheimia succiniciproducens MBEL55E
5 TrpR

Actinobacillus succinogenes 130Z
4 TrpR

Haemophilus somnus 2336
3 TrpR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
3 TrpR

Haemophilus parasuis SH0165
Tryptophan biosynthesis
TyrR TF TyrR
2 TyrR

Haemophilus influenzae Rd KW20
2 TyrR

Aggregatibacter aphrophilus NJ8700
4 TyrR

Pasteurella multocida subsp. multocida str. Pm70
3 TyrR

Mannheimia succiniciproducens MBEL55E
2 TyrR

Actinobacillus succinogenes 130Z
2 TyrR

Haemophilus somnus 2336
3 TyrR

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 TyrR

Haemophilus ducreyi 35000HP
4 TyrR

Haemophilus parasuis SH0165
Aromatic amino acid metabolism
RF00050 RNA FMN
1 FMN

Haemophilus influenzae Rd KW20
1 FMN

Aggregatibacter aphrophilus NJ8700
1 FMN

Pasteurella multocida subsp. multocida str. Pm70
1 FMN

Mannheimia succiniciproducens MBEL55E
1 FMN

Actinobacillus succinogenes 130Z
1 FMN

Haemophilus somnus 2336
1 FMN

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 FMN

Haemophilus ducreyi 35000HP
1 FMN

Haemophilus parasuis SH0165
Riboflavin biosynthesis
RF00059 RNA TPP
3 TPP

Haemophilus influenzae Rd KW20
3 TPP

Aggregatibacter aphrophilus NJ8700
2 TPP

Pasteurella multocida subsp. multocida str. Pm70
3 TPP

Mannheimia succiniciproducens MBEL55E
3 TPP

Actinobacillus succinogenes 130Z
1 TPP

Haemophilus somnus 2336
2 TPP

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 TPP

Haemophilus ducreyi 35000HP
2 TPP

Haemophilus parasuis SH0165
Thiamine biosynthesis
RF00114 RNA S15
2 S15

Haemophilus influenzae Rd KW20
1 S15

Aggregatibacter aphrophilus NJ8700
1 S15

Pasteurella multocida subsp. multocida str. Pm70
1 S15

Mannheimia succiniciproducens MBEL55E
1 S15

Actinobacillus succinogenes 130Z
1 S15

Haemophilus somnus 2336
1 S15

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 S15

Haemophilus ducreyi 35000HP
1 S15

Haemophilus parasuis SH0165
Ribosome biogenesis
RF00168 RNA Lysine
1 Lysine

Haemophilus influenzae Rd KW20
1 Lysine

Aggregatibacter aphrophilus NJ8700
1 Lysine

Pasteurella multocida subsp. multocida str. Pm70
1 Lysine

Mannheimia succiniciproducens MBEL55E
1 Lysine

Haemophilus somnus 2336
2 Lysine

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 Lysine

Haemophilus ducreyi 35000HP
1 Lysine

Haemophilus parasuis SH0165
Lysine biosynthesis
RF00504 RNA Glycine
1 Glycine

Haemophilus influenzae Rd KW20
1 Glycine

Aggregatibacter aphrophilus NJ8700
1 Glycine

Pasteurella multocida subsp. multocida str. Pm70
1 Glycine

Mannheimia succiniciproducens MBEL55E
1 Glycine

Actinobacillus succinogenes 130Z
1 Glycine

Haemophilus somnus 2336
1 Glycine

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 Glycine

Haemophilus ducreyi 35000HP
1 Glycine

Haemophilus parasuis SH0165
Glycine metabolism
RF00506 RNA Thr_leader
1 Thr_leader

Haemophilus influenzae Rd KW20
1 Thr_leader

Pasteurella multocida subsp. multocida str. Pm70
1 Thr_leader

Mannheimia succiniciproducens MBEL55E
1 Thr_leader

Actinobacillus succinogenes 130Z
1 Thr_leader

Haemophilus somnus 2336
1 Thr_leader

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 Thr_leader

Haemophilus parasuis SH0165
Threonine biosynthesis
RF00512 RNA Leu_leader
1 Leu_leader

Haemophilus influenzae Rd KW20
2 Leu_leader

Aggregatibacter aphrophilus NJ8700
1 Leu_leader

Pasteurella multocida subsp. multocida str. Pm70
1 Leu_leader

Mannheimia succiniciproducens MBEL55E
Branched-chain amino acid biosynthesis
RF00514 RNA His_leader
2 His_leader

Haemophilus influenzae Rd KW20
2 His_leader

Aggregatibacter aphrophilus NJ8700
1 His_leader

Pasteurella multocida subsp. multocida str. Pm70
1 His_leader

Mannheimia succiniciproducens MBEL55E
1 His_leader

Actinobacillus succinogenes 130Z
1 His_leader

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 His_leader

Haemophilus parasuis SH0165
Histidine biosynthesis
RF00522 RNA PreQ1
1 PreQ1

Haemophilus influenzae Rd KW20
2 PreQ1

Aggregatibacter aphrophilus NJ8700
1 PreQ1

Pasteurella multocida subsp. multocida str. Pm70
1 PreQ1

Mannheimia succiniciproducens MBEL55E
1 PreQ1

Actinobacillus succinogenes 130Z
1 PreQ1

Actinobacillus pleuropneumoniae serovar 7 str. AP76
1 PreQ1

Haemophilus ducreyi 35000HP
1 PreQ1

Haemophilus parasuis SH0165
Queuosine biosynthesis
RF00557 RNA L10_leader
1 L10_leader

Haemophilus influenzae Rd KW20
1 L10_leader

Aggregatibacter aphrophilus NJ8700
1 L10_leader

Haemophilus somnus 2336
Ribosome biogenesis
RF01055 RNA MOCO_RNA_motif
1 MOCO_RNA_motif

Haemophilus influenzae Rd KW20
1 MOCO_RNA_motif

Aggregatibacter aphrophilus NJ8700
1 MOCO_RNA_motif

Pasteurella multocida subsp. multocida str. Pm70
1 MOCO_RNA_motif

Mannheimia succiniciproducens MBEL55E
1 MOCO_RNA_motif

Actinobacillus succinogenes 130Z
2 MOCO_RNA_motif

Haemophilus somnus 2336
2 MOCO_RNA_motif

Actinobacillus pleuropneumoniae serovar 7 str. AP76
2 MOCO_RNA_motif

Haemophilus ducreyi 35000HP
1 MOCO_RNA_motif

Haemophilus parasuis SH0165
Molybdopterin biosynthesis; Molybdenum homeostasis