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alsA:On One Page

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Gene Name	alsA (synonyms: ECK4080, b4087, JW4048, yjcW)^[1]
Product(s)	AlsA product^[1]: fused D-allose transporter subunits of ABC superfamily: ATP-binding components product, B4087 product, YjcW product
Description	YjcW^[2]^[3] Component of D-allose ABC transporter^[2]
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): alsRBACE^[2]
Regulation/Activity
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Notes

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Gene

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Nomenclature

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Standard name	alsA
Mnemonic
Synonyms	ECK4080, b4087, JW4048, yjcW^[1]
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Notes

Location(s) and DNA Sequence

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Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	92.84 minutes, 92.84 minutes	MG1655: 4309003..4307471	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
W3110		W3110: 4315658..4314126	GBrowse(W3110)	FASTA Dump
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Strain

Map location

Genome coordinates

Genome browsers

Sequence links

MG1655

92.84 minutes, 92.84 minutes

MG1655: 4309003..4307471
gbrowse_img.php?coord=4306471..4310003&genome=ecoli&name=MG1655&trackset=0&width=300&.png

EcoCyc

GBrowse(MG1655)

W3110

W3110: 4315658..4314126
gbrowse_img.php?coord=4313126..4316658&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

GBrowse(W3110)

FASTA Dump

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Notes

Sequence Features

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Feature type	Location	Description
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Notes

Alleles and Phenotypes

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Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔalsA (Keio:JW4048)	deletion	deletion			PMID:16738554^[4]	Shigen
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Notes

Genetic Resources

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Resource	Resource Type	Source	Notes/Reference
JW4048	Plasmid clone	Shigen	PMID:16769691^[5] Status:Clone OK Primer 1:GCCGCCACGCCATATATATCGAT Primer 2:CCtTCTTGTGGTAAAGCCCATGC
zje-2241::Tn10	Linked marker	CAG18427 = CGSC7481^[6]	est. P1 cotransduction: 94% ^[7]
cadB2231::Tn10	Linked marker	CAG18488 = CGSC7479^[6]	est. P1 cotransduction: 10% ^[7] Synonyms:zjd-2231::Tn10
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG11959
EchoBASE (EcoliWiki Page)	EchoBASE:EB1902
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4087
ECOL199310CYC (EcoliWiki Page)	ECOL199310CYC:C5093
EcoGene (EcoliWiki Page)	EcoGene:EG11959
ECOO157CYC (EcoliWiki Page)	ECOO157CYC:Z5691
ASAP (EcoliWikiPage)	ASAP:ABE-0013394
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Links

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Name	URL	Comments
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Product(s)

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Nomenclature

Standard name	AlsA product
Synonyms	fused D-allose transporter subunits of ABC superfamily: ATP-binding components product^[1], B4087 product^[2]^[1], YjcW product^[2]^[1], AlsA product^[2]^[1]
Product description	YjcW^[2]^[3]; Component of ; D-allose ABC transporter^[2]^[3]
EC number (for enzymes)
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Notes

Function

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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(s)	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000166	nucleotide binding	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR003593 SP_KW:KW-0547	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005351	sugar:hydrogen symporter activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0762	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005524	ATP binding	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR003439 SP_KW:KW-0067	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006810	transport	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0813	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0008643	carbohydrate transport	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0762	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0015407	monosaccharide-transporting ATPase activity	GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:3.6.3.17	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016020	membrane	GO_REF:0000004 GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0397 SP_KW:KW-0472	C	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016787	hydrolase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0378	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016887	ATPase activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003439	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0017111	nucleoside-triphosphatase activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003593	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:16606699^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P0A6F5	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005737	cytoplasm				C	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0016052	carbohydrate catabolic process				P	Seeded from EcoCyc 11.1^[3].	required fields missing
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Interactions

Partner Type	Partner	Notes	References
Protein	Subunits of D-allose ABC transporter	could be indirect
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Notes

Localization

Compartment	Description	Evidence	Notes
cytoplasm			From EcoCyc^[3]
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Notes

Structure and Physical Properties

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Physical Properties

Sequence	at EcoCyc MATPYISMAG IGKSFGPVHA LKSVNLTVYP GEIHALLGEN GAGKSTLMKV LSGIHEPTKG TITINNISYN KLDHKLAAQL GIGIIYQELS VIDELTVLEN LYIGRHLTKK ICGVNIIDWR EMRVRAAMML LRVGLKVDLD EKVANLSISH KQMLEIAKTL MLDAKVIIMD EPTSSLTNKE VDYLFLIMNQ LRKEGTAIVY ISHKLAEIRR ICDRYTVMKD GSSVCSGIVS DVSNDDIVRL MVGRELQNRF NAMKENVSNL AHETVFEVRN VTSRDRKKVR DISFSVCRGE ILGFAGLVGS GRTELMNCLF GVDKRAGGEI RLNGKDISPR SPLDAVKKGM AYITESRRDN GFFPNFSIAQ NMAISRSLKD GGYKGAMGLF HEVDEQRTAE NQRELLALKC HSVNQNITEL SGGNQQKVLI SKWLCCCPEV IIFDEPTRGI DVGAKAEIYK VMRQLADDGK VILMVSSELP EIITVCDRIA VFCEGRLTQI LTNRDDMSEE EIMAWALPQE
Mol. Wt	56.74 kDa (calc) ^[2]
pI
Extinction coefficient	32890 - 34265 (calc based on 11 Y, 3 W, and 11 C residues)
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Domains/Motifs/Modification Sites

Type	Residues	Description	Notes
Domain	260 - 509	ABC transporter 2	UniProt:P32721
Domain	6 - 245	ABC transporter 1	UniProt:P32721
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Structure

Structures	Representative homolog: 2ONK\|A (Archaeoglobus fulgidus) 63-207 of 510 residues (E-value: 1.0e-08) (Percent Identity: 25.00) View all other structures.
Models	View models at: EcoliPredict ModBase PSI-PRED Protein Quaternary Structure (PQS) Genomes TO Protein (GTOP)
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Structures

Representative homolog:
2ONK|A (Archaeoglobus fulgidus)
63-207 of 510 residues (E-value: 1.0e-08) (Percent Identity: 25.00)
View all other structures.

Models

View models at:

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Notes

Gene Product Resources

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Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:YJCW-MONOMER
UniProt (EcoliWiki Page)	UniProt:P32721
PFAM (EcoliWiki Page)	PFAM:PF00005
RefSeq (EcoliWiki Page)	RefSeq:NP_418511
ModBase (EcoliWiki Page)	ModBase:P32721
ECOO157CYC (EcoliWiki Page)	ECOO157CYC:Z5691-MONOMER
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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.

Transcription and Transcriptional Regulation

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Transcription unit(s)
alsRBACE
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Figure courtesy of RegulonDB

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

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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gbrowse_img.php?coord=4308983..4309023&genome=ecoli&name=MG1655&trackset=Genes_unlabeled+DNA_unlabeled+flip&width=400&.png
This picture shows the sequence around the N-terminus.

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

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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Mutations Affecting Expression

Allele Name	Mutation	Phenotype	Reference
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Expression Studies

Type	Reference	Notes
microarray	GenExpDB:b4087 (EcoliWiki Page)	Summary of data for alsA from multiple microarray studies
microarray	GEO Profiles:b4087 (EcoliWiki Page)	NCBI GEO profiles for alsA
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Expression Resources

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (4308489..4308723) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ14; Well:D7^[10]
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Notes

Accessions Related to alsA Expression

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG11959
EchoBASE (EcoliWiki Page)	EchoBASE:EB1902
EcoliGenExpDB (EcoliWiki Page)	GenExpDB:b4087
EcoGene (EcoliWiki Page)	EcoGene:EG11959
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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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Organism	Homologs (Statistics)	Comments
Anopheles gambiae	ENSANGP00000029065 (score: 1.000; bootstrap: 100%) YP_026286 (score: 0.089)	From Inparanoid:20070104
Drosophila pseudoobscura	YP_026286 (score: 0.230) GA14368-PA (score: 1.000; bootstrap: 87%) GA13367-PA (score: 0.116)	From Inparanoid:20070104
E. coli O157	Z5691	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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Database	Accession	Notes
PFAM (EcoliWiki Page)	PFAM:PF00005
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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 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 ^3.2 ^3.3 ^3.4 ^3.5 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ Baba T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006.0008 PubMed EcoliWiki page
↑ Kitagawa M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (A Complete Set of E. coli K-12 ORF Archive): Unique Resources for Biological Research. DNA Res 12: 291-9 PubMed EcoliWiki page
↑ ^6.0 ^6.1 CGSC: The Coli Genetics Stock Center
↑ ^7.0 ^7.1 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).
↑ ^8.00 ^8.01 ^8.02 ^8.03 ^8.04 ^8.05 ^8.06 ^8.07 ^8.08 ^8.09 ^8.10 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ Arifuzzaman M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res 16: 686-91 PubMed EcoliWiki page
↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

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Retrieved from "http://ecoliwiki.net/colipedia/index.php/alsA:On_One_Page"

alsA:On One Page

From EcoliWiki

Quickview

Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Expression

Overview

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to alsA Expression

Notes

Links

Categories

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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