Regulog NikR - Rhizobiales

Properties
Regulator type:	Transcription factor
Regulator family:	NikR
Regulation mode:	repressor
Biological process:	Nickel homeostasis
Effector:	Nickel ion, (Ni2+)
Phylum:	Proteobacteria/alpha
Visualization:
	Allows to visualize regulog content in the context of metabolic pathways

Built upon 11 sites [see more]

Member of regulog collections

By trascription factor - NikR
By taxonomy - Rhizobiales
By TF family - NikR
By effector - Nickel ion, (Ni2+)
By pathway - Nickel homeostasis

Statistics of regulated genes
Genome	Genes	Operons
Sinorhizobium meliloti 1021
Rhizobium sp. NGR234
Rhizobium leguminosarum bv. viciae 3841
Rhizobium etli CFN 42
Agrobacterium tumefaciens str. C58 (Cereon)
Mesorhizobium sp. BNC1
Mesorhizobium loti MAFF303099
Brucella melitensis 16M	6	2
Bartonella quintana str. Toulouse
Rhodopseudomonas palustris CGA009	2	2
Bradyrhizobium japonicum USDA 110	3	2
Bradyrhizobium sp. BTAi1	5	5
Nitrobacter winogradskyi Nb-255
Azorhizobium caulinodans ORS 571
Xanthobacter autotrophicus Py2

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

CRON 1.
nikR	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	* Brucella melitensis 16M Site: position = -180 score = 7.10095 sequence = GTATGAT-(14)-ATCATAT Gene: BMEII0486: Nickel responsive regulator NikR, CopG family	Bartonella quintana str. Toulouse	* Rhodopseudomonas palustris CGA009 Site: position = -59 score = 7.66225 sequence = GTATGAC-(14)-TTCATAC Gene: RPA4756: Nickel responsive regulator NikR, CopG family	Bradyrhizobium japonicum USDA 110 Gene: bll0699: Nickel responsive regulator NikR, CopG family	* Bradyrhizobium sp. BTAi1 Site: position = -62 score = 7.74979 sequence = GTATGAT-(14)-ATCATAC Gene: BBta_6191: Nickel responsive regulator NikR, CopG family	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel responsive regulator NikR, CopG family

CRON 2.
omp_Ni-2	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	* Bradyrhizobium sp. BTAi1 Site: position = -80 score = 7.74979 sequence = GTATGAT-(14)-ATCATAC Gene: BBta_3362: Nickel-regulated outer membrane transporter, TonB-dependent family	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel-regulated outer membrane transporter, TonB-dependent family

CRON 3.
hoxN2	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	* Bradyrhizobium sp. BTAi1 Site: position = -85 score = 7.66225 sequence = GTATGAC-(14)-TTCATAC Gene: BBta_3358: high-affinity nickel-transporter, NiCoT family	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	high-affinity nickel-transporter, NiCoT family

CRON 4.
nikA	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	* Brucella melitensis 16M Site: position = -57 score = 7.10095 sequence = ATATGAT-(14)-ATCATAC Gene: BMEII0487: Nickel ABC transporter, periplasmic nickel-binding protein NikA (TC 3.A.1.5.3)	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	Bradyrhizobium sp. BTAi1	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel ABC transporter, periplasmic nickel-binding protein NikA (TC 3.A.1.5.3)
nikB	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M Gene: BMEII0488: Nickel transport system permease protein NikB (TC 3.A.1.5.3)	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	Bradyrhizobium sp. BTAi1	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel transport system permease protein NikB (TC 3.A.1.5.3)
nikC	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M Gene: BMEII0489: Nickel transport system permease protein NikC (TC 3.A.1.5.3)	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	Bradyrhizobium sp. BTAi1	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel transport system permease protein NikC (TC 3.A.1.5.3)
nikD	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M Gene: BMEII0490: Nickel transport ATP-binding protein NikD (TC 3.A.1.5.3)	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	Bradyrhizobium sp. BTAi1	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel transport ATP-binding protein NikD (TC 3.A.1.5.3)
nikE	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M Gene: BMEII0491: Nickel transport ATP-binding protein NikE (TC 3.A.1.5.3)	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	Bradyrhizobium japonicum USDA 110	Bradyrhizobium sp. BTAi1	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Nickel transport ATP-binding protein NikE (TC 3.A.1.5.3)

CRON 5.
hoxN	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M	Bartonella quintana str. Toulouse	Rhodopseudomonas palustris CGA009	2 Bradyrhizobium japonicum USDA 110* Site: position = 22 score = 7.74979 sequence = GTATGAT-(14)-ATCATAC Gene: bll6910: high-affinity nickel-transporter, NiCoT family Site: position = 13 score = 7.83304 sequence = GTATGAC-(14)-ATCATAC Gene: bll6949: high-affinity nickel-transporter, NiCoT family	* Bradyrhizobium sp. BTAi1 Site: position = -2 score = 6.85059 sequence = GTATGAC-(14)-ATCATCC Gene: BBta_1993: high-affinity nickel-transporter, NiCoT family	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	high-affinity nickel-transporter, NiCoT family
omp_Ni	Sinorhizobium meliloti 1021	Rhizobium sp. NGR234	Rhizobium leguminosarum bv. viciae 3841	Rhizobium etli CFN 42	Agrobacterium tumefaciens str. C58 (Cereon)	Mesorhizobium sp. BNC1	Mesorhizobium loti MAFF303099	Brucella melitensis 16M	Bartonella quintana str. Toulouse	* Rhodopseudomonas palustris CGA009 Site: position = -89 score = 7.66225 sequence = GTATGAA-(14)-GTCATAC Gene: RPA4757: Predicted outer membrane nickel transporter, TonB-dependent family	Bradyrhizobium japonicum USDA 110 Gene: bll6948: Predicted outer membrane nickel transporter, TonB-dependent family	* Bradyrhizobium sp. BTAi1 Site: position = -179 score = 7.74979 sequence = GTATGAT-(14)-ATCATAC Gene: BBta_6192: Predicted outer membrane nickel transporter, TonB-dependent family	Nitrobacter winogradskyi Nb-255	Azorhizobium caulinodans ORS 571	Xanthobacter autotrophicus Py2	Predicted outer membrane nickel transporter, TonB-dependent family

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).

Export
	Regulated Genes	[ Tab delimited format ]	DOWNLOAD
	Regulatory Sites	[ FASTA format ]	DOWNLOAD

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

Regulog NikR - Rhizobiales

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