Regulog PdxR - Clostridia-3

Properties
Regulator type:	Transcription factor
Regulator family:	GntR/MocR
Regulation mode:
Biological process:	Pyridoxine biosynthesis
Effector:	Pyridoxal-5-phosphate
Phylum:	Firmicutes
Visualization:
	Allows to visualize regulog content in the context of metabolic pathways

Built upon 21 sites [see more]

Member of regulog collections

By taxonomy - Clostridia-3
By trascription factor - PdxR
By TF family - GntR/MocR
By effector - Pyridoxal-5-phosphate
By pathway - Pyridoxine biosynthesis

Statistics of regulated genes
Genome	Genes	Operons
Bacteroides pectinophilus ATCC 43243	1	1
Blautia hansenii DSM 20583	1	1
Bryantella formatexigens DSM 14469	1	1
Clostridiales bacterium 1_7_47_FAA	3	2
Clostridium bolteae ATCC BAA-613	3	2
Clostridium nexile DSM 1787	2	1
Clostridium scindens ATCC 35704	3	2
Dorea formicigenerans ATCC 27755	2	1
Dorea longicatena DSM 13814	4	3
Eubacterium eligens ATCC 27750	2	1
Eubacterium rectale ATCC 33656	1	1
Roseburia intestinalis L1-82	3	1
Ruminococcus gnavus ATCC 29149	3	2
Ruminococcus lactaris ATCC 29176	3	2

Clusters of co-Regulated Orthologous operoNs (CRONs)
Genes															Function

CRON 1.
ROSINTL182_03667	Bacteroides pectinophilus ATCC 43243	Blautia hansenii DSM 20583	Bryantella formatexigens DSM 14469	Clostridiales bacterium 1_7_47_FAA	Clostridium bolteae ATCC BAA-613	Clostridium nexile DSM 1787	Clostridium scindens ATCC 35704	Dorea formicigenerans ATCC 27755	Dorea longicatena DSM 13814	Eubacterium eligens ATCC 27750	Eubacterium rectale ATCC 33656	* Roseburia intestinalis L1-82 Site: position = -7 score = 11.9189 sequence = AACTGGCAT-(15)-AACTGGATG-(8)-CATCCAGTT Gene: ROSINTL182_03667: hypothetical protein	Ruminococcus gnavus ATCC 29149	Ruminococcus lactaris ATCC 29176	hypothetical protein
pdxS	Bacteroides pectinophilus ATCC 43243	Blautia hansenii DSM 20583	Bryantella formatexigens DSM 14469	Clostridiales bacterium 1_7_47_FAA	Clostridium bolteae ATCC BAA-613	Clostridium nexile DSM 1787	Clostridium scindens ATCC 35704	* Dorea formicigenerans ATCC 27755 Site: position = -141 score = 12.2906 sequence = AACTGGCTT-(15)-AACTGGATA-(8)-ATACCAGTT Gene: DORFOR_02364: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	* Dorea longicatena DSM 13814 Site: position = -56 score = 12.0638 sequence = AACTGGTAT-(15)-AACTGGATG-(8)-ATACCAGAT Gene: DORLON_00259: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	* Eubacterium eligens ATCC 27750 Site: position = -106 score = 12.0483 sequence = TTCTGGCAT-(15)-AATTGGATA-(8)-TGACCAGTT Gene: EUBELI_20439: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	Eubacterium rectale ATCC 33656 Gene: EUBREC_2951: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	Roseburia intestinalis L1-82 Gene: ROSINTL182_03666: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	* Ruminococcus gnavus ATCC 29149 Site: position = -101 score = 11.5154 sequence = AACTGGCAT-(15)-AACTGGATG-(8)-AAGCCAATC Gene: RUMGNA_01775: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	* Ruminococcus lactaris ATCC 29176 Site: position = -132 score = 10.3666 sequence = TTCTGACCT-(15)-AATTGAATA-(8)-TAGTCACAA Gene: RUMLAC_01874: Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)	Pyridoxine biosynthesis glutamine amidotransferase, synthase subunit (EC 2.4.2.-)
pdxT	Bacteroides pectinophilus ATCC 43243	Blautia hansenii DSM 20583	Bryantella formatexigens DSM 14469	Clostridiales bacterium 1_7_47_FAA	Clostridium bolteae ATCC BAA-613	Clostridium nexile DSM 1787	Clostridium scindens ATCC 35704	Dorea formicigenerans ATCC 27755 Gene: DORFOR_02363: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Dorea longicatena DSM 13814 Gene: DORLON_00260: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Eubacterium eligens ATCC 27750 Gene: EUBELI_20440: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Eubacterium rectale ATCC 33656 Gene: EUBREC_2952: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Roseburia intestinalis L1-82 Gene: ROSINTL182_03665: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Ruminococcus gnavus ATCC 29149 Gene: RUMGNA_01774: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Ruminococcus lactaris ATCC 29176 Gene: RUMLAC_01875: Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)	Pyridoxine biosynthesis glutamine amidotransferase, glutaminase subunit (EC 2.4.2.-)

CRON 2.
pdxK	Bacteroides pectinophilus ATCC 43243 Gene: BACPEC_02722: Pyridoxal kinase (EC 2.7.1.35)	Blautia hansenii DSM 20583	Bryantella formatexigens DSM 14469 Gene: BRYFOR_04365: Pyridoxal kinase (EC 2.7.1.35)	2 Clostridiales bacterium 1_7_47_FAA Gene: Cbac1_010100014735: Pyridoxal kinase (EC 2.7.1.35) Gene: Cbac1_010100001360: Pyridoxal kinase (EC 2.7.1.35)	Clostridium bolteae ATCC BAA-613 Gene: CLOBOL_04693: Pyridoxal kinase (EC 2.7.1.35)	2 Clostridium nexile DSM 1787 Gene: CLONEX_00361: Pyridoxal kinase (EC 2.7.1.35) Gene: CLONEX_01624: Pyridoxal kinase (EC 2.7.1.35)	* Clostridium scindens ATCC 35704 Site: position = -199 score = 10.1202 sequence = AACTGGCCT-(15)-ATCTGGACT-(8)-CATCCACTT Gene: CLOSCI_00017: Pyridoxal kinase (EC 2.7.1.35)	Dorea formicigenerans ATCC 27755 Gene: DORFOR_02568: Pyridoxal kinase (EC 2.7.1.35)	2 Dorea longicatena DSM 13814 Gene: DORLON_00568: Pyridoxal kinase (EC 2.7.1.35) Gene: DORLON_02260: Pyridoxal kinase (EC 2.7.1.35)	Eubacterium eligens ATCC 27750 Gene: EUBELI_01355: Pyridoxal kinase (EC 2.7.1.35)	Eubacterium rectale ATCC 33656 Gene: EUBREC_0323: Pyridoxal kinase (EC 2.7.1.35)	Roseburia intestinalis L1-82	Ruminococcus gnavus ATCC 29149 Gene: RUMGNA_03080: Pyridoxal kinase (EC 2.7.1.35)	Ruminococcus lactaris ATCC 29176 Gene: RUMLAC_00794: Pyridoxal kinase (EC 2.7.1.35)	Pyridoxal kinase (EC 2.7.1.35)
pdxU	* Bacteroides pectinophilus ATCC 43243 Site: position = -60 score = 9.34414 sequence = ATCTGGTAT-(15)-AACTGGCAT-(8)-TTGCCACAT Gene: BACPEC_01644: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	* Blautia hansenii DSM 20583 Site: position = -97 score = 10.9124 sequence = AACTGGACT-(15)-AACTGGCTA-(8)-TAGCCAGTT Gene: BLAHAN_01809: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	* Bryantella formatexigens DSM 14469 Site: position = -125 score = 10.0426 sequence = AACTGGACT-(15)-AACTGGACA-(8)-TATCCGGAT Gene: BRYFOR_03586: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	2 Clostridiales bacterium 1_7_47_FAA* Site: position = -133 score = 10.3039 sequence = AACTGGACT-(15)-AACTGGATA-(8)-ACTCCACTC Gene: Cbac1_010100001365: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter Site: position = -182 score = 10.4653 sequence = AAGTGGACT-(15)-AACTGGATA-(8)-AGTCCACTT Gene: Cbac1_010100020035: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	2 Clostridium bolteae ATCC BAA-613* Site: position = -124 score = 11.384 sequence = AACTGGACT-(15)-AACTGGATA-(8)-ATTCCACTT Gene: CLOBOL_04694: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter Site: position = -104 score = 10.4081 sequence = ATCTGGACT-(15)-AACTGGATA-(8)-AGTCCACCT Gene: CLOBOL_05306: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	2 Clostridium nexile DSM 1787* Site: position = -97 score = 9.37632 sequence = AACTGGACT-(15)-AACTGGTAT-(8)-ATACCAGAA Gene: CLONEX_02290: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter Gene: CLONEX_02289: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	2 Clostridium scindens ATCC 35704* Site: position = -95 score = 10.8696 sequence = AACTGGACT-(15)-AACTGGACA-(8)-TGACCACTT Gene: CLOSCI_02639: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter Gene: CLOSCI_00016: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	Dorea formicigenerans ATCC 27755 Gene: DORFOR_03143: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	2 Dorea longicatena DSM 13814* Site: position = -142 score = 10.8121 sequence = AACTGGCCT-(15)-AACTGGCTG-(8)-CATCCACTT Gene: DORLON_01651: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter Site: position = -63 score = 10.2113 sequence = AACTGGTAT-(15)-AACTGGCTC-(8)-ATGCCACTA Gene: DORLON_00405: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	Eubacterium eligens ATCC 27750 Gene: EUBELI_01125: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	2 Eubacterium rectale ATCC 33656* Site: position = -170 score = 10.5529 sequence = AACTGGATA-(15)-AATTGGATA-(8)-ATGCCACAT Gene: EUBREC_0262: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter Gene: EUBREC_0322: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	Roseburia intestinalis L1-82	* Ruminococcus gnavus ATCC 29149 Site: position = -75 score = 10.8696 sequence = AACTGGACT-(15)-AACTGGACA-(8)-TATCCACTT Gene: RUMGNA_02238: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	* Ruminococcus lactaris ATCC 29176 Site: position = -93 score = 8.79778 sequence = ATCTGACCT-(15)-AATTGACCA-(8)-GGTTCACAT Gene: RUMLAC_01106: Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter	Substrate-specific component PdxU of predicted pyridoxin-related ECF transporter

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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	Regulatory Sites	[ FASTA format ]	DOWNLOAD

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

Regulog PdxR - Clostridia-3

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