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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	basS
Gene Synonym(s)	ECK4105, b4112, JW4073, pmrB^[1], pmrB
Product Desc.	sensory histidine kinase in two-component regulatory system with BasR^[1] Histidine protein kinase sensor Lipid A modification genes; two-component system involved in polymyxin resistance that senses high extracellular Fe(2+)^[2]
Product Synonyms(s)	B4112^[3]^[1], PmrB^[3]^[1], ECK4105, JW4073, pmrB, b4112
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): basRS^[3]
Regulation/Activity
Quick Links
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Notes

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BasR is the cognate response regulator of the BasSR two-component system. The BasSR regulon has been primarily characterized in Salmonella; unlike E. coli, Salmonella also activates PmrAB(BasSR) in low Mg(2+), mediated by PhoPQ and the PmrD protein.^[2]

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	basS
Mnemonic	Bacterial Adaptive reSponse
Synonyms	ECK4105, b4112, JW4073, pmrB^[1], pmrB
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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	93.33 minutes	MG1655: 4331295..4330204 <gbrowseImage> name=NC_000913:4330204..4331295 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4311986..4310895 <gbrowseImage> name=NC_012967:4310895..4311986 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4268939..4270030 <gbrowseImage> name=NC_012759:4268939..4270030 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4337950..4336859 <gbrowseImage> name=NC_007779:4336859..4337950 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4431657..4430566 <gbrowseImage> name=NC_010473:4430566..4431657 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
ΔbasS (Keio:JW4073)	deletion	deletion	PMID:16738554	Shigen CGSC10931^[4]
ΔbasS738::kan			PMID:16738554	CGSC:100156
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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
JW4073	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCATTTTCTGCGCCGACCAAT Primer 2:CCTATCTGGTTTGCCACGTACTG
2C12	Kohara Phage	Genobase	PMID:3038334
8H1	Kohara Phage	Genobase	PMID:3038334
zje-2241::Tn10	Linked marker	CAG18427 = CGSC7481^[4]	est. P1 cotransduction: 40% ^[5]
cadB2231::Tn10	Linked marker	CAG18488 = CGSC7479^[4]	est. P1 cotransduction: 37% ^[5] Synonyms:zjd-2231::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:EG11614	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11614	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001562	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948632	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1571	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013464	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	BasS
Synonyms	B4112^[3]^[1], PmrB^[3]^[1], ECK4105, JW4073, pmrB, b4112
Product description	sensory histidine kinase in two-component regulatory system with BasR^[1] Histidine protein kinase sensor Lipid A modification genes; two-component system involved in polymyxin resistance that senses high extracellular Fe(2+)^[2]
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:0000155	two-component sensor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003661	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000155	two-component sensor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005467	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000160	two-component signal transduction system (phosphorelay)	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0902	P	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:0004673	protein histidine kinase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005467	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004673	protein histidine kinase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.7.13.3	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004871	signal transducer activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003660	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004871	signal transducer activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009082	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003594	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:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0007165	signal transduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003660	P	Seeded from EcoCyc (v14.0)	complete
	GO:0007165	signal transduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003661	P	Seeded from EcoCyc (v14.0)	complete
	GO:0007165	signal transduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005467	P	Seeded from EcoCyc (v14.0)	complete
	GO:0007165	signal transduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009082	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003661	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003660	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9909	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016301	kinase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0418	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016310	phosphorylation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004358	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016740	transferase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0808	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016772	transferase activity, transferring phosphorus-containing groups	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004358	F	Seeded from EcoCyc (v14.0)	complete
	GO:0018106	peptidyl-histidine phosphorylation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005467	P	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	References	Evidence
Protein	ygdH	PMID:16606699	Experiment(s):EBI-1147469
Protein	melA	PMID:16606699	Experiment(s):EBI-1147469
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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
plasma membrane	C-terminus localized in the cytoplasm with 2 predicted transmembrane domains	Daley et al. (2005) ^[6]
plasma membrane			From EcoCyc^[7]
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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 MHFLRRPISL RQRLILTIGA ILLVFELISV FWLWHESTEQ IQLFEQALRD NRNNDRHIMR EIREAVASLI VPGVFMVSLT LFICYQAVRR ITRPLAELQK ELEARTADNL TPIAIHSATL EIEAVVSALN DLVSRLTSTL DNERLFTADV AHELRTPLAG VRLHLELLAK THHIDVAPLV ARLDQMMESV SQLLQLARAG QSFSSGNYQH VKLLEDVILP SYDELSTMLD QRQQTLLLPE SAADITVQGD ATLLRMLLRN LVENAHRYSP QGSNIMIKLQ EDDGAVMAVE DEGPGIDESK CGELSKAFVR MDSRYGGIGL GLSIVSRITQ LHHGQFFLQN RQETSGTRAW VRLKKDQYVA NQI
Length	363
Mol. Wt	41.029 kDa
pI	6.4 (calculated)
Extinction coefficient	25,440 - 25,690 (calc based on 6 Y, 3 W, and 2 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	69..138	PF00672 HAMP domain	PMID:19920124
Domain	249..356	PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase	PMID:19920124
Domain	142..202	PF00512 His Kinase A (phosphoacceptor) domain	PMID:19920124
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<motif_map/>

Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=basS 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:16131938	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948632	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013464	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P30844	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11614	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11614	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948632	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001562	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1571	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	Notes	Reference(s)
Protein	Ecoli K-12	0.741+/-0.265	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.013290559	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	238	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	120	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	37^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)
basRS
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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_000913:4331275..4331315 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:b4112 (EcoliWiki Page)	NCBI GEO profiles for basS
microarray	GenExpDB:b4112 (EcoliWiki Page)	Summary of data for basS 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 basS Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11614	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1571	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4112
EcoGene	EcoGene:EG11614	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001562	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013464	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
Dictyostelium discoideum	DDB0219944 (score: 1.000; bootstrap: 100%) DDB0191265 (score: 0.086)	From Inparanoid:20070104
Shigella flexneri	BASS	From SHIGELLACYC
E. coli O157	BASS	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)	PF00512 His Kinase A (phosphoacceptor) domain
Pfam (EcoliWiki Page)	PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
Pfam (EcoliWiki Page)	PF00672 HAMP domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:47384
Superfamily (EcoliWiki Page)	SUPERFAMILY:55874
EcoCyc	EcoCyc:EG11614	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11614	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001562	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1571	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013464	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 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).
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

basS: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 basS Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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