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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	ybaL
Gene Synonym(s)	ECK0472, b0478, JW0467, ylaA^[1], ylaA
Product Desc.	YbaL CPA2 transporter^[2]^[3] Potassium transporter homolog, function unknown^[4]
Product Synonyms(s)	predicted transporter with NAD(P)-binding Rossmann-fold domain^[1], B0478^[2]^[1], YlaA^[2]^[1], YbaL^[2]^[1] , ECK0472, JW0467, ylaA, b0478
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ybaL^[2]
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	ybaL
Mnemonic	Systematic nomenclature
Synonyms	ECK0472, b0478, JW0467, ylaA^[1], ylaA
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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	10.79 minutes	MG1655: 502462..500786 <gbrowseImage> name=NC_000913:500786..502462 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 475305..473629 <gbrowseImage> name=NC_012967:473629..475305 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 403545..405221 <gbrowseImage> name=NC_012759:403545..405221 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 502462..500786 <gbrowseImage> name=NC_007779:500786..502462 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 441793..440117 <gbrowseImage> name=NC_010473:440117..441793 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
ybaL(del) (Keio:JW0467)	deletion	deletion			PMID:16738554	Shigen CGSC8619^[5]
ybaL::Tn5KAN-I-SceI (FB20185)	Insertion at nt 610 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20185	does not contain pKD46
ybaL::Tn5KAN-I-SceI (FB20186)	Insertion at nt 610 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20186	contains pKD46
ybaL(del)::kan	deletion		Biolog:respiration	unable to respire Acetate	PMID:16095938
ybaL760(del)::kan					PMID:16738554	CGSC:103632
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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
JW0467	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCATCACGCCACCCCGCTTAT Primer 2:CCCCCCGTCACCACCTCACCCGC
4B10	Kohara Phage	Genobase	PMID:3038334
zaj-3054::Tn10	Linked marker	CAG12017 = CGSC7339^[5]	est. P1 cotransduction: 17% ^[6] Synonyms:zba-3054::Tn10
gsk-3055::Tn10	Linked marker	CAG12154 = CGSC7341^[5]	est. P1 cotransduction: 99% ^[6] Synonyms:zbb-30-55::TnlO, zba-3055::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:EG12623	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12623	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002335	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946576	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2507	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001658	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	YbaL
Synonyms	predicted transporter with NAD(P)-binding Rossmann-fold domain^[1], B0478^[2]^[1], YlaA^[2]^[1], YbaL^[2]^[1] , ECK0472, JW0467, ylaA, b0478
Product description	YbaL CPA2 transporter^[2]^[3] Potassium transporter homolog, function unknown^[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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016040	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005488	binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016040	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:0006810	transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0813	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006811	ion transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0406	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006812	cation transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004771	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006812	cation transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006153	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006813	potassium ion transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003148	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016040	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008324	cation transmembrane transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004771	F	Seeded from EcoCyc (v14.0)	complete
	GO:0015297	antiporter activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0050	F	Seeded from EcoCyc (v14.0)	complete
	GO:0015299	solute:hydrogen antiporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006153	F	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:IPR004771	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006153	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:0055085	transmembrane transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006153	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	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
plasma membrane	C-terminus localized in the cytoplasm with 11 predicted transmembrane domains	Daley et al. (2005) ^[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 MHHATPLITT IVGGLVLAFI LGMLANKLRI SPLVGYLLAG VLAGPFTPGF VADTKLAPEL AELGVILLMF GVGLHFSLKD LMAVKAIAIP GAIAQIAVAT LLGMALSAVL GWSLMTGIVF GLCLSTASTV VLLRALEERQ LIDSQRGQIA IGWLIVEDLV MVLTLVLLPA VAGMMEQGDV GFATLAVDMG ITIGKVIAFI AIMMLVGRRL VPWIMARSAA TGSRELFTLS VLALALGVAF GAVELFDVSF ALGAFFAGMV LNESELSHRA AHDTLPLRDA FAVLFFVSVG MLFDPLILIQ QPLAVLATLA IILFGKSLAA FFLVRLFGHS QRTALTIAAS LAQIGEFAFI LAGLGMALNL LPQAGQNLVL AGAILSIMLN PVLFALLEKY LAKTETLEEQ TLEEAIEEEK QIPVDICNHA LLVGYGRVGS LLGEKLLASD IPLVVIETSR TRVDELRERG VRAVLGNAAN EEIMQLAHLE CAKWLILTIP NGYEAGEIVA SARAKNPDIE IIARAHYDDE VAYITERGAN QVVMGEREIA RTMLELLETP PAGEVVTG
Length	558
Mol. Wt	59.425 kDa
pI	4.9 (calculated)
Extinction coefficient	30,940 - 31,315 (calc based on 6 Y, 4 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	11..389	PF00999 Sodium/hydrogen exchanger family	PMID:19920124
Domain	420..535	PF02254 TrkA-N 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=ybaL 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:16128462	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946576	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001658	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P39830	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12623	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12623	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946576	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002335	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2507	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	341	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	124	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	186	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)
ybaL
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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_000913:502442..502482 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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:b0478 (EcoliWiki Page)	NCBI GEO profiles for ybaL
microarray	GenExpDB:b0478 (EcoliWiki Page)	Summary of data for ybaL 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 (502390..502741) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ14; Well:H5^[8]
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Notes

Accessions Related to ybaL Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12623	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2507	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0478
EcoGene	EcoGene:EG12623	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002335	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001658	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
Bos taurus	ENSBTAP00000020850 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00009617 (score: 1.000; bootstrap: 100%) WBGene00010214 (score: 0.678) WBGene00009618 (score: 0.274)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000009546 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000005318 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0219541 (score: 1.000; bootstrap: 100%) DDB0184575 (score: 0.148)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000027112 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000279934 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000004640 (score: 1.000; bootstrap: 100%) ENSMODP00000016169 (score: 0.217)	From Inparanoid:20070104
Mus musculus	MGI:2444946 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q5Z8T1 (score: 1.000; bootstrap: 73%) Q8S5V1 (score: 0.347)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000010303 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000026281 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YJL094C (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC1051c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00017938001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000038550 (score: 1.000; bootstrap: 74%)	From Inparanoid:20070104
Shigella flexneri	YBAL	From SHIGELLACYC
E. coli O157	YBAL	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)	PF00999 Sodium/hydrogen exchanger family
Superfamily (EcoliWiki Page)	SUPERFAMILY:51735
Pfam (EcoliWiki Page)	PF02254 TrkA-N domain
EcoCyc	EcoCyc:EG12623	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12623	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002335	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2507	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001658	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 ^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 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).
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

ybaL: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 ybaL Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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