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Gene |

Product(s) |

Expression|

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Standard Name	norR
Gene Synonym(s)	ECK2704, b2709, JW5843, ygaA^[1], ygaA
Product Desc.	NorR transcriptional activator^[2]; NorR transcriptional dual regulator^[3] Response regulator for norVW transcription, NO-responsive; sensor partner unidentified^[4]
Product Synonyms(s)	DNA-binding transcriptional activator^[1], B2709^[2]^[1], NorR^[2]^[1], YgaA^[2]^[1], transcriptional regulator of the anaerobic response to reactive nitrogen species^[2]^[1] , ECK2704, JW5843, ygaA, b2709
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): norR^[2]
Regulation/Activity
Quick Links
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Notes

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AFMB Structural Genomics target No. 27 (http://afmb.cnrs-mrs.fr/article171.html).^[4]

Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	norR
Mnemonic	NO reduction
Synonyms	ECK2704, b2709, JW5843, ygaA^[1], ygaA
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	60.97 minutes	MG1655: 2830311..2828797 <gbrowseImage> name=NC_000913:2828797..2830311 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2725635..2727149 <gbrowseImage> name=NC_012967:2725635..2727149 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2714609..2716123 <gbrowseImage> name=NC_012759:2714609..2716123 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2830945..2829431 <gbrowseImage> name=NC_007779:2829431..2830945 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2922853..2921339 <gbrowseImage> name=NC_010473:2921339..2922853 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔnorR (Keio:JW5843)	deletion	deletion			PMID:16738554	Shigen
ygaA::Tn5KAN-I-SceI (FB20892)	Insertion at nt 266 in Minus orientation				PMID:15262929	E. coli Genome Project:FB20892	contains pKD46
ΔygaA::kan	deletion		Biolog:respiration	unable to respire D-Mannose	PMID:16095938
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW5843	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAGTTTTTCCGTTGATGTGCT Primer 2:CCATCCTTCAATCCCAGACGTTT
9G10	Kohara Phage	Genobase	PMID:3038334
1B2	Kohara Phage	Genobase	PMID:3038334
srlD3131::Tn10	Linked marker	CAG18642 = CGSC7423^[5]	est. P1 cotransduction: 90% ^[6] Synonyms:zfh-3131::Tn10, zfi-3131::Tn10
cysI95::Tn10	Linked marker	CAG12173 = CGSC7425^[5]	est. P1 cotransduction: 6% ^[6] Synonyms:cysC95::Tn10
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG12108	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12108	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002013	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947186	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2032	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008904	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	NorR
Synonyms	DNA-binding transcriptional activator^[1], B2709^[2]^[1], NorR^[2]^[1], YgaA^[2]^[1], transcriptional regulator of the anaerobic response to reactive nitrogen species^[2]^[1] , ECK2704, JW5843, ygaA, b2709
Product description	NorR transcriptional activator^[2]; NorR transcriptional dual regulator^[3] Response regulator for norVW transcription, NO-responsive; sensor partner unidentified^[4]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000160	two-component signal transduction system (phosphorelay)	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01314	P	Seeded from EcoCyc (v14.0)	complete
	GO:0000166	nucleotide binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003593	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000166	nucleotide binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003677	DNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0238	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01314	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01314	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002078	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0067	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005622	intracellular	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002078	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006350	transcription	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0804	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006355	regulation of transcription, DNA-dependent	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01314	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006355	regulation of transcription, DNA-dependent	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002078	P	Seeded from EcoCyc (v14.0)	complete
	GO:0007600	sensory perception	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01314	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008134	transcription factor binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002078	F	Seeded from EcoCyc (v14.0)	complete
	GO:0017111	nucleoside-triphosphatase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003593	F	Seeded from EcoCyc (v14.0)	complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	Notes	References	Evidence
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MSSQNDYQSN GRYDNIYSQI DSEAKMSFSV DVLANIAIEL QRGIGHQDRF QRLITTLRQV LECDASALLR YDSRQFIPLA IDGLAKDVLG RRFALEGHPR LEAIARAGDV VRFPADSELP DPYDGLIPGQ ESLKVHACVG LPLFAGQNLI GALTLDGMQP DQFDVFSDEE LRLIAALAAG ALSNALLIEQ LESQNMLPGD ATPFEAVKQT QMIGLSPGMT QLKKEIEIVA ASDLNVLISG ETGTGKELVA KAIHEASPRA VNPLVYLNCA ALPESVAESE LFGHVKGAFT GAISNRSGKF EMADNGTLFL DEIGELSLAL QAKLLRVLQY GDIQRVGDDR CLRVDVRVLA ATNRDLREEV LAGRFRADLF HRLSVFPLSV PPLRERGDDV ILLAGYFCEQ CRLRQGLSRV VLSAGARNLL QHYSFPGNVR ELEHAIHRAV VLARATRSGD EVILEAQHFA FPEVTLPTPE VAAVPVVKQN LREATEAFQR ETIRQALAQN HHNWAACARM LETDVANLHR LAKRLGLKD
Length	529
Mol. Wt	58.133 kDa
pI	5.6 (calculated)
Extinction coefficient	18,910 - 19,785 (calc based on 9 Y, 1 W, and 7 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	References
Domain	21..157	PF01590 GAF domain	PMID:19920124
Domain	187..354	PF00158 Sigma-54 interaction domain	PMID:19920124
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=norR taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:90111481	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947186	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008904	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P37013	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12108	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12108	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947186	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002013	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2032	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MG1655	88	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	36	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	71	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
norR
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Figure courtesy of RegulonDB

</protect>

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2830291..2830331 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b2709 (EcoliWiki Page)	NCBI GEO profiles for norR
microarray	GenExpDB:b2709 (EcoliWiki Page)	Summary of data for norR from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (2830288..2830543) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ04; Well:A9^[7]
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Notes

Accessions Related to norR Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG12108	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2032	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2709
EcoGene	EcoGene:EG12108	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002013	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008904	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Arabidopsis thaliana	AT1G19050 (score: 1.000; bootstrap: 100%) AT1G74890 (score: 0.581) AT5G24470 (score: 0.061) AT5G02810 (score: 0.052)	From Inparanoid:20070104
Oryza gramene	Q4GZL0 (score: 1.000; bootstrap: 100%) Q9FRY8 (score: 0.455) Q6YVX7 (score: 0.448) Q4GZK9 (score: 0.448) Q7XRI1 (score: 0.361) Q6H468 (score: 0.164) Q9FRZ0 (score: 0.159) Q9FXQ7 (score: 0.157) Q7XKF6 (score: 0.157) Q4GZK6 (score: 0.152) Q942A1 (score: 0.152) Q4GZK7 (score: 0.152) Q9FRZ1 (score: 0.147) Q6K9T0 (score: 0.144) Q4GZK8 (score: 0.144) Q4GZK2 (score: 0.137) Q9FRY9 (score: 0.134) Q9S7U8 (score: 0.134) Q7XQA6 (score: 0.134) Q4JF20 (score: 0.134) Q4GZK5 (score: 0.134) Q8H5N4 (score: 0.122) Q4GZK4 (score: 0.122) Q9ZQW0 (score: 0.117) Q8GVV6 (score: 0.092) Q4GZK3 (score: 0.092) Q8GVV1 (score: 0.055) Q6YZK8 (score: 0.055)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000043612 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YGAA	From SHIGELLACYC
E. coli O157	YGAA	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01590 GAF domain
Panther (EcoliWiki Page)	PTHR10919:SF208
Superfamily (EcoliWiki Page)	SUPERFAMILY:52540
Superfamily (EcoliWiki Page)	SUPERFAMILY:55781
Pfam (EcoliWiki Page)	PF00158 Sigma-54 interaction domain
EcoCyc	EcoCyc:EG12108	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12108	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002013	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2032	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008904	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

norR:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to norR Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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