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Standard Name	srlR
Gene Synonym(s)	ECK2702, b2707, JW2676, gutR^[1], gutR
Product Desc.	GutR transcriptional repressor^[2]^[3] Regulatory gene for srl operon^[4]
Product Synonyms(s)	DNA-bindng transcriptional repressor^[1], SrlR^[2]^[1], B2707^[2]^[1], GutR^[2]^[1], regulator for gut (srl), glucitol operon^[2]^[1] , ECK2702, gutR, JW2676, b2707
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): srlR^[2], gutR, srlAEBD-gutM-srlR-gutQ^[2], OP00177, gutABDMR, srlABDMR
Regulation/Activity
Quick Links
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Notes

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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	srlR
Mnemonic	Sorbitol
Synonyms	ECK2702, b2707, JW2676, gutR^[1], gutR
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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	60.93 minutes	MG1655: 2827069..2827842 <gbrowseImage> name=NC_000913:2827069..2827842 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2723907..2724680 <gbrowseImage> name=NC_012967:2723907..2724680 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2712881..2713654 <gbrowseImage> name=NC_012759:2712881..2713654 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2827703..2828476 <gbrowseImage> name=NC_007779:2827703..2828476 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2919611..2920384 <gbrowseImage> name=NC_010473:2919611..2920384 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
srlR(del) (Keio:JW2676)	deletion	deletion			PMID:16738554	Shigen CGSC10111^[5]
srlR(del)::kan	deletion		Biolog:respiration	unable to respire Acetate	PMID:16095938
srlR(del)::kan	deletion		Biolog:respiration	unable to respire Succinate	PMID:16095938
srlR(del)::kan	deletion		Biolog:respiration	unable to respire Bromosuccinate	PMID:16095938
srlR(del)::kan	deletion		Biolog:respiration	unable to respire L-Asparagine	PMID:16095938
srlR(del)::kan	deletion		Biolog:respiration	unable to respire L-Aspartate	PMID:16095938
srlR301::Tn10						CGSC:4675
srlR782(del)::kan					PMID:16738554	CGSC:103018
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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
JW2676	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAACCTCGTCAGCGTCAGGC Primer 2:CCtTCATTGCTCTCTCCGGTTAT
23B7	Kohara Phage	Genobase	PMID:3038334
9G10	Kohara Phage	Genobase	PMID:3038334
srlD3131::Tn10	Linked marker	CAG18642 = CGSC7423^[5]	est. P1 cotransduction: 95% ^[6] Synonyms:zfh-3131::Tn10, zfi-3131::Tn10
cysI95::Tn10	Linked marker	CAG12173 = CGSC7425^[5]	est. P1 cotransduction: 5% ^[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:EG10974	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10974	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000963	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948942	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0967	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008900	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	SrlR
Synonyms	DNA-bindng transcriptional repressor^[1], SrlR^[2]^[1], B2707^[2]^[1], GutR^[2]^[1], regulator for gut (srl), glucitol operon^[2]^[1] , ECK2702, gutR, JW2676, b2707
Product description	GutR transcriptional repressor^[2]^[3] Regulatory gene for srl operon^[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
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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	References	Evidence
Protein	ynbC	PMID:15690043	Experiment(s):EBI-887918
Protein	dnaK	PMID:15690043	Experiment(s):EBI-887918
Protein	entC	PMID:15690043	Experiment(s):EBI-887918
Protein	hupA	PMID:15690043	Experiment(s):EBI-887918
Protein	hupB	PMID:15690043	Experiment(s):EBI-887918
Protein	pflB	PMID:15690043	Experiment(s):EBI-887918
Protein	rplA	PMID:15690043	Experiment(s):EBI-887918
Protein	rplB	PMID:15690043	Experiment(s):EBI-887918
Protein	rplC	PMID:15690043	Experiment(s):EBI-887918
Protein	rplD	PMID:15690043	Experiment(s):EBI-887918
Protein	rplE	PMID:15690043	Experiment(s):EBI-887918
Protein	rplM	PMID:15690043	Experiment(s):EBI-887918
Protein	rplO	PMID:15690043	Experiment(s):EBI-887918
Protein	rplR	PMID:15690043	Experiment(s):EBI-887918
Protein	rplT	PMID:15690043	Experiment(s):EBI-887918
Protein	rplU	PMID:15690043	Experiment(s):EBI-887918
Protein	rplV	PMID:15690043	Experiment(s):EBI-887918
Protein	rplW	PMID:15690043	Experiment(s):EBI-887918
Protein	rpmC	PMID:15690043	Experiment(s):EBI-887918
Protein	rpmG	PMID:15690043	Experiment(s):EBI-887918
Protein	rpsA	PMID:15690043	Experiment(s):EBI-887918
Protein	rpsB	PMID:15690043	Experiment(s):EBI-887918
Protein	rpsE	PMID:15690043	Experiment(s):EBI-887918
Protein	ydaT	PMID:15690043	Experiment(s):EBI-887918
Protein	yfiF	PMID:15690043	Experiment(s):EBI-887918
Protein	ynbC	PMID:19402753	LCMS(ID Probability):99.0
Protein	entC	PMID:19402753	LCMS(ID Probability):99.0
Protein	ydaT	PMID:19402753	LCMS(ID Probability):99.0
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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 MKPRQRQAAI LEYLQKQGKC SVEELAQYFD TTGTTIRKDL VILEHAGTVI RTYGGVVLNK EESDPPIDHK TLINTHKKEL IAEAAVSFIH DGDSIILDAG STVLQMVPLL SRFNNITVMT NSLHIVNALS ELDNEQTILM PGGTFRKKSA SFHGQLAENA FEHFTFDKLF MGTDGIDLNA GVTTFNEVYT VSKAMCNAAR EVILMADSSK FGRKSPNVVC SLESVDKLIT DAGIDPAFRQ ALEEKGIDVI ITGESNE
Length	257
Mol. Wt	28.236 kDa
pI	5.2 (calculated)
Extinction coefficient	5,960 - 6,335 (calc based on 4 Y, 0 W, and 3 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	75..231	PF00455 Bacterial regulatory proteins, deoR family	PMID:19920124
Domain	6..62	PF08220 DeoR-like helix-turn-helix 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=srlR 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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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:16130614	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948942	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008900	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P15082	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10974	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10974	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948942	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000963	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0967	Escherichia coli str. K-12 substr. MG1655
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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	210	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	77	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	104	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)
srlR
srlAEBD-gutM-srlR-gutQ
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Figure courtesy of RegulonDB

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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_000913:2827049..2827089 source=MG1655 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:b2707 (EcoliWiki Page)	NCBI GEO profiles for srlR
microarray	GenExpDB:b2707 (EcoliWiki Page)	Summary of data for srlR 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 (2826905..2827074) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ03; Well:D4^[7]
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Notes

Accessions Related to srlR Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10974	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0967	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2707
EcoGene	EcoGene:EG10974	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000963	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008900	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
Apis mellifera	ENSAPMP00000020045 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000019507 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	SRLR	From SHIGELLACYC
E. coli O157	SRLR	From ECOO157CYC
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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF08220 DeoR-like helix-turn-helix domain
Pfam (EcoliWiki Page)	PF00455 Bacterial regulatory proteins, deoR family
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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 ^2.11 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 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 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

srlR: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 srlR Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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