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Gene |

Product(s) |

Expression|

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Standard Name	sfsB
Gene Synonym(s)	ECK3177, b3188, JW3155, nlp, sfs7^[1], sfs7
Product Desc.	Nlp transcriptional regulator^[2]^[3] Overexpression increases maltose and lactose utilization; stimulates MalQ, MalP and LacZ^[4]
Product Synonyms(s)	DNA-binding transcriptional activator of maltose metabolism^[1], B3188^[2]^[1], SfsB^[2]^[1], Nlp^[2]^[1] , ECK3177, JW3155, nlp, sfs7, b3188
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): sfsB^[2]
Regulation/Activity
Quick Links
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Notes

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SfsB is homologous to the Ner regulatory protein of phage Mu.^[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	sfsB
Mnemonic	Sugar fermentation stimulation
Synonyms	ECK3177, b3188, JW3155, nlp, sfs7^[1], sfs7
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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	71.84 minutes	MG1655: 3332931..3333209 <gbrowseImage> name=NC_000913:3332931..3333209 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3270144..3270422 <gbrowseImage> name=NC_012967:3270144..3270422 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3220079..3220357 <gbrowseImage> name=NC_012759:3220079..3220357 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3334764..3335042 <gbrowseImage> name=NC_007779:3334764..3335042 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3430676..3430954 <gbrowseImage> name=NC_010473:3430676..3430954 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)	Reference	Availability	Comments
ΔsfsB (Keio:JW3155)	deletion	deletion	PMID:16738554	Shigen CGSC10395^[5]
sfsB203::Tn10	Insertion at 3,333,181 bp in MG1655 (NC_000913)		adapted from Nichols et al.^[6]	CAG12072 = CGSC7440^[5]	Synonyms: zgj-203::Tn10, zha-203::Tn10
sfsB3198::Tn10kan			PMID:2540407 PMID:9829956	CGSC:38762
sfsB203::Tn10			PMID:2540407 PMID:9829956	CGSC:38771
ΔsfsB720::kan			PMID:16738554	CGSC:102936
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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
JW3155	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGAAAGTAATTTCATTGACTG Primer 2:CCTTTTTTCGGTTTAGTGTAGCT
14F11	Kohara Phage	Genobase	PMID:3038334
aer-3075::Tn10	Linked marker	CAG12152 = CGSC7438^[5]	est. P1 cotransduction: % ^[6] Synonyms:zgh-3075::Tn10, zgj-3075::Tn10
zhc-6::Tn10	Linked marker	CAG12153 = CGSC7442^[5]	est. P1 cotransduction: 30% ^[6] Synonyms:zha-6::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:EG10656	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10656	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000649	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947960	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0650	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010477	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	SfsB
Synonyms	DNA-binding transcriptional activator of maltose metabolism^[1], B3188^[2]^[1], SfsB^[2]^[1], Nlp^[2]^[1] , ECK3177, JW3155, nlp, sfs7, b3188
Product description	Nlp transcriptional regulator^[2]^[3] Overexpression increases maltose and lactose utilization; stimulates MalQ, MalP and LacZ^[4]
EC number (for enzymes)
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Notes

The sfsB gene was originally named nlp for Ner-like protein based on its amino acid sequence similarity to the DNA-binding domain of the Ner repressor from phage Mu. SfsB belongs to the family of Lambda repressor-like, DNA-binding proteins (IPR010982) so is likely to be a transcription factor. However, it's physiological role is not clear.

When present in multicopy, sfsB allows strain MK2001 to ferment maltose^[7]. MK2001 is an E. coli K-12 strain that doesn't make cAMP because the cya gene is disrupted by insertion of a KmR cassette and that also carries the crp*1 mutation. The crp*1 allele allows a strain lacking cAMP to have a Lac⁺ phenotype on MacConkey lactose medium, but is still Mal^- on MacConkey maltose medium ^[8]. The sfsB gene in multicopy does not confer a Mal⁺ on a cya::KmR crp⁺ strain.

A total of 12 different E. coli DNA fragments with this phenotype were isolated ^[9]. One other of the plasmid inserts, sfs1, was sequenced. The sfs1 gene was later renamed sfsA. Whether sfsA and sfsB are normally involved in regulating maltose catabolism has not been determined.

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	rpsD	PMID:16606699	Experiment(s):EBI-1145105
Protein	ybaA	PMID:16606699	Experiment(s):EBI-1145105
Protein	yneG	PMID:16606699	Experiment(s):EBI-1145105
Protein	rplB	PMID:16606699	Experiment(s):EBI-1145105
Protein	yghW	PMID:16606699	Experiment(s):EBI-1145105
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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 MESNFIDWHP ADIIAGLRKK GTSMAAESRR NGLSSSTLAN ALSRPWPKGE MIIAKALGTD PWVIWPSRYH DPQTHEFIDR TQLMRSYTKP KK
Length	92
Mol. Wt	10.495 kDa
pI	10.3 (calculated)
Extinction coefficient	24,980 (calc based on 2 Y, 4 W, and 0 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	Notes	References
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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=sfsB 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:16131078	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947960	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010477	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ACH1	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10656	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10656	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947960	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000649	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0650	Escherichia coli str. K-12 substr. MG1655
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Notes

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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	Notes	Reference(s)
Protein	E. coli K-12 MG1655	171	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	43	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^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
sfsB
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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_000913:3332911..3332951 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:b3188 (EcoliWiki Page)	NCBI GEO profiles for sfsB
microarray	GenExpDB:b3188 (EcoliWiki Page)	Summary of data for sfsB 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
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Notes

Accessions Related to sfsB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10656	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0650	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3188
EcoGene	EcoGene:EG10656	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000649	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010477	Escherichia coli str. K-12 substr. MG1655
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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
Shigella flexneri	NLP	From SHIGELLACYC
E. coli O157	NLP	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
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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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 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 ^5.2 ^5.3 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 ^6.2 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).
↑ Choi, YL et al. (1989) Cloning and sequencing of an Escherichia coli gene, nlp, highly homologous to the ner genes of bacteriophages Mu and D108. J. Bacteriol. 171 5222-5 PubMed
↑ Aiba, H et al. (1985) Mutations that alter the allosteric nature of cAMP receptor protein of Escherichia coli. EMBO J. 4 3329-32 PubMed
↑ Kawamukai, M et al. (1991) Nucleotide sequence and characterization of the sfs1 gene: sfs1 is involved in CRP*-dependent mal gene expression in Escherichia coli. J. Bacteriol. 173 2644-8 PubMed

sfsB: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 sfsB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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