Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 3.2 --

Regulog ydaO-yuaA - Clostridiaceae

Properties
Regulator type: RNA regulatory element
Name: ydaO-yuaA
RFAM: RF00379
Regulation mode:
Biological process: Cell wall metabolism; Osmotic stress response
Effector:
Phylum: Firmicutes
Member of regulog collections
Statistics of regulated genes
Genome Genes Operons
Clostridium kluyveri DSM 555 2 2
Clostridium sp. SS2/1
Clostridium cellulolyticum H10 4 4
Clostridium phytofermentans ISDg 1 1
Clostridium tetani E88 2 2
Clostridium acetobutylicum ATCC 824 2 2
Clostridium botulinum A str. ATCC 3502 2 2
Clostridium novyi NT 1 1
Clostridium perfringens ATCC 13124
Clostridium difficile 630
Clostridium beijerincki NCIMB 8052 3 2
Clostridium sp. OhILAs 1 1
Clostridium sp. L2-50
Clostridium scindens ATCC 35704
Clostridium nexile DSM 1787
Clostridium leptum DSM 753
Clostridium hiranonis DSM 13275
Clostridium butyricum 5521
Clostridium bolteae ATCC BAA-613 1 1
Clostridium bartlettii DSM 16795
Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes Function
 
CRON 1.
nhaP
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
*
Clostridium phytofermentans ISDg

Site:
position = -273
score = 75.1
sequence = ATGAAACAAATCCGA...

Gene: null: NhaP-type Na+/H+ and K+/H+ antiporters
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs

Gene: Clos_2091: NhaP-type Na+/H+ and K+/H+ antiporters
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
NhaP-type Na+/H+ and K+/H+ antiporters
 
CRON 2.
SH3/COG0791
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
*
Clostridium cellulolyticum H10

Site:
position = -171
score = 77.09
sequence = CTTATAAAAGGCTGA...

Gene: Ccel_2128: SH3 domain / Cell wall-associated hydrolase, COG0791
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
SH3 domain / Cell wall-associated hydrolase, COG0791
 
CRON 3.
COG0791
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
 
Clostridium phytofermentans ISDg
*
Clostridium tetani E88

Site:
position = -131
score = 78.47
sequence = AATACGTACTATGCT...

Gene: CTC02078: Cell wall-associated hydrolases (invasion-associated proteins)
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
Cell wall-associated hydrolases (invasion-associated proteins)
 
CRON 4.
COG0591
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
*
Clostridium bolteae ATCC BAA-613

Site:
position = -327
score = 79.77
sequence = TCACCAAGTCGCTTA...

Gene: CLOBOL_01252: Na+/proline symporter
 
Clostridium bartlettii DSM 16795
Na+/proline symporter
 
CRON 5.
SH3/COG0791
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
*
Clostridium cellulolyticum H10

Site:
position = -148
score = 83.19
sequence = CGAAATTAAAAAGCT...

Gene: Ccel_1956: SH3 domain / Cell wall-associated hydrolase, COG0791
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
SH3 domain / Cell wall-associated hydrolase, COG0791
 
CRON 6.
SH3/COG0791
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
*
Clostridium cellulolyticum H10

Site:
position = -140
score = 90.32
sequence = TACAAAATATGCTGA...

Gene: Ccel_0747: SH3 domain / Cell wall-associated hydrolase, COG0791
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
SH3 domain / Cell wall-associated hydrolase, COG0791
 
CRON 7.
COG3773
*
Clostridium kluyveri DSM 555

Site:
position = -136
score = 85.22
sequence = ACAATATCATTAGCC...

Gene: CKL_0312: Cell wall hydrolyses involved in spore germination
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
 
Clostridium phytofermentans ISDg
*
Clostridium tetani E88

Site:
position = -103
score = 87.78
sequence = AATAACATAAGCCTA...

Gene: CTC02551: Cell wall hydrolyses involved in spore germination
*
Clostridium acetobutylicum ATCC 824

Site:
position = -124
score = 76.9
sequence = ATCATTAGCCTAAAT...

Gene: CAC3081: Cell wall hydrolyses involved in spore germination
*
Clostridium botulinum A str. ATCC 3502

Site:
position = -124
score = 94.71
sequence = ACTATTATTAGCCTA...

Gene: CBO3432: Cell wall hydrolyses involved in spore germination
 
Clostridium novyi NT

Gene: NT01CX_1160: Cell wall hydrolyses involved in spore germination
 
Clostridium perfringens ATCC 13124

Gene: CPF_2662: Cell wall hydrolyses involved in spore germination
 
Clostridium difficile 630

Gene: CD3563: Cell wall hydrolyses involved in spore germination
 
Clostridium beijerincki NCIMB 8052

Gene: Cbei_0199: Cell wall hydrolyses involved in spore germination
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521

Gene: CBY_2915: Cell wall hydrolyses involved in spore germination
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795

Gene: CLOBAR_00229: Cell wall hydrolyses involved in spore germination
Cell wall hydrolyses involved in spore germination
 
CRON 8.
dapB
 2
Clostridium kluyveri DSM 555

Gene: CKL_3205: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: CKL_2799: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium sp. SS2/1

Gene: CLOSS21_00346: Dihydrodipicolinate reductase (EC 1.3.1.26)
*2
Clostridium cellulolyticum H10

Site:
position = -281
score = 99.58
sequence = ATAATTTATCGCTGA...

Gene: Ccel_0519: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: Ccel_0525: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium phytofermentans ISDg

Gene: null: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium tetani E88

Gene: CTC02295: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium acetobutylicum ATCC 824

Gene: CAC2379: Dihydrodipicolinate reductase (EC 1.3.1.26)
 2
Clostridium botulinum A str. ATCC 3502

Gene: CBO0791: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: CBO3153: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium novyi NT

Gene: NT01CX_1745: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium perfringens ATCC 13124

Gene: CPF_2162: Dihydrodipicolinate reductase (EC 1.3.1.26)
 2
Clostridium difficile 630

Gene: CD3226: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: CD3229: Dihydrodipicolinate reductase (EC 1.3.1.26)
*2
Clostridium beijerincki NCIMB 8052

Site:
position = -249
score = 98.79
sequence = TAATTATAACGCTGA...

Gene: Cbei_2934: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: Cbei_1795: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium sp. OhILAs

Gene: Clos_1164: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium sp. L2-50

Gene: CLOL250_00645: Dihydrodipicolinate reductase (EC 1.3.1.26)
 2
Clostridium scindens ATCC 35704

Gene: CLOSCI_00327: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: CLOSCI_03685: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium nexile DSM 1787

Gene: CLONEX_02737: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium leptum DSM 753

Gene: CLOLEP_03141: Dihydrodipicolinate reductase (EC 1.3.1.26)
 2
Clostridium hiranonis DSM 13275

Gene: CLOHIR_00816: Dihydrodipicolinate reductase (EC 1.3.1.26)

Gene: CLOHIR_00814: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium butyricum 5521

Gene: CBY_0568: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium bolteae ATCC BAA-613

Gene: CLOBOL_04167: Dihydrodipicolinate reductase (EC 1.3.1.26)
 
Clostridium bartlettii DSM 16795

Gene: CLOBAR_00363: Dihydrodipicolinate reductase (EC 1.3.1.26)
Dihydrodipicolinate reductase (EC 1.3.1.26)
COG1246
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
*2
Clostridium beijerincki NCIMB 8052

Site:
position = -337
score = 97.02
sequence = GATATATGTAACGCT...

Gene: Cbei_1453: N-acetylglutamate synthase and related acetyltransferases

Gene: Cbei_2936: N-acetylglutamate synthase and related acetyltransferases
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613

Gene: CLOBOL_03581: N-acetylglutamate synthase and related acetyltransferases
 
Clostridium bartlettii DSM 16795
N-acetylglutamate synthase and related acetyltransferases
 
CRON 9.
Clos_0046
 
Clostridium kluyveri DSM 555
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
 
Clostridium acetobutylicum ATCC 824
 
Clostridium botulinum A str. ATCC 3502
 
Clostridium novyi NT
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
*
Clostridium sp. OhILAs

Site:
position = -286
score = 110.58
sequence = TATATACATAGCGCT...

Gene: Clos_0046: hypothetical protein
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
hypothetical protein
 
CRON 10.
lysM/COG3773
*
Clostridium kluyveri DSM 555

Site:
position = -147
score = 88.26
sequence = ACTATAAAACAAGCC...

Gene: CKL_0667: Peptidoglycan-binding lysin domain / Cell wall hydrolyses involved in spore germination
 
Clostridium sp. SS2/1
 
Clostridium cellulolyticum H10
 
Clostridium phytofermentans ISDg
 
Clostridium tetani E88
*
Clostridium acetobutylicum ATCC 824

Site:
position = -172
score = 83.59
sequence = CCTTAAGAGTGCCGA...

Gene: CAC1232: Peptidoglycan-binding lysin domain / Cell wall hydrolyses involved in spore germination
*
Clostridium botulinum A str. ATCC 3502

Site:
position = -129
score = 79.38
sequence = TAAACAAATCATGCC...

Gene: CBO1324: Peptidoglycan-binding lysin domain / Cell wall hydrolyses involved in spore germination
*
Clostridium novyi NT

Site:
position = -135
score = 88.31
sequence = CATCTGAACAATGCC...

Gene: NT01CX_1494: Peptidoglycan-binding lysin domain / Cell wall hydrolyses involved in spore germination
 
Clostridium perfringens ATCC 13124
 
Clostridium difficile 630
 
Clostridium beijerincki NCIMB 8052
 
Clostridium sp. OhILAs
 
Clostridium sp. L2-50
 
Clostridium scindens ATCC 35704
 
Clostridium nexile DSM 1787
 
Clostridium leptum DSM 753
 
Clostridium hiranonis DSM 13275
 
Clostridium butyricum 5521
 
Clostridium bolteae ATCC BAA-613
 
Clostridium bartlettii DSM 16795
Peptidoglycan-binding lysin domain / Cell wall hydrolyses involved in spore germination
Bluish color - the gene is in regulated operon. Different regulated operons are shown in different shades of blue.
Red color - the gene is in non-regulated operon.
Gray color - the orthologous gene is absent.
The star symbol - the TFBS is located in upstream region of this gene.
The number - the numeber of homologs (shown only if it is greater than one).
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