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Standard Name	allS
Gene Synonym(s)	ybbS, ECK0497, b0504, JW0492, glxA1^[1]^[2], glxA1
Product Desc.	DNA-binding transcriptional regulator^[2]; AllS transcriptional activator^[3] Transcriptional activator for the allD operon^[4]
Product Synonyms(s)	DNA-binding transcriptional activator of the allD operon^[1], B0504^[2]^[1], AllS^[2]^[1], YbbS ^[2]^[1], GlxA1^[2]^[1] , ECK0497, glxA1, JW0492, ybbS, b0504
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): allS^[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	allS
Mnemonic	Allantoin
Synonyms	ybbS, ECK0497, b0504, JW0492, glxA1^[1]^[2], glxA1
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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	11.43 minutes	MG1655: 531445..530519 <gbrowseImage> name=NC_000913:530519..531445 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 433278..434204 <gbrowseImage> name=NC_012759:433278..434204 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 531445..530519 <gbrowseImage> name=NC_007779:530519..531445 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 470776..469850 <gbrowseImage> name=NC_010473:469850..470776 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
ΔallS787::kan					PMID:16738554	CGSC:106126
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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
	Plasmid clone	Shigen	PMID:16769691 Status: Primer 1: Primer 2:
8E4	Kohara Phage	Genobase	PMID:3038334
9E5	Kohara Phage	Genobase	PMID:3038334
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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:G6274	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13267	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002882	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945139	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3053	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001742	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	YbbS
Synonyms	DNA-binding transcriptional activator of the allD operon^[1], B0504^[2]^[1], AllS^[2]^[1], YbbS ^[2]^[1], GlxA1^[2]^[1] , ECK0497, glxA1, JW0492, ybbS, b0504
Product description	DNA-binding transcriptional regulator^[2]; AllS transcriptional activator^[3] Transcriptional activator for the allD 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
	GO:0003700	transcription factor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000847	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	PMID:12460564	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0043193	positive regulation of gene-specific transcription	PMID:12460564	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0043193	positive regulation of gene-specific transcription	PMID:12460564	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc (v14.0)	complete
	GO:0043565	sequence-specific DNA binding	PMID:12460564	IDA: Inferred from Direct Assay		F	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	groL	PMID:16606699	Experiment(s):EBI-1136939
Protein	prs	PMID:16606699	Experiment(s):EBI-1136939
Protein	sdhA	PMID:16606699	Experiment(s):EBI-1136939
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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 MFDPETLRTF IAVAETGSFS KAAERLCKTT ATISYRIKLL EENTGVALFF RTTRSVTLTA AGEHLLSQAR DWLSWLESMP SELQQVNDGV ERQVNIVINN LLYNPQAVAQ LLAWLNERYP FTQFHISRQI YMGVWDSLLY EGFSLAIGVT GTEALANTFS LDPLGSVQWR FVMAADHPLA NVEEPLTEAQ LRRFPAVNIE DSARTLTKRV AWRLPGQKEI IVPDMETKIA AHLAGVGIGF LPKSLCQSMI DNQQLVSRVI PTMRPPSPLS LAWRKFGSGK AVEDIVTLFT QRRPEISGFL EIFGNPRS
Length	308
Mol. Wt	34.511 kDa
pI	6.9 (calculated)
Extinction coefficient	45,950 - 46,200 (calc based on 5 Y, 7 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	87..294	PF03466 LysR substrate binding domain	PMID:19920124
Domain	4..63	PF00126 Bacterial regulatory helix-turn-helix protein, lysR family	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=allS 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:16128488	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945139	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001742	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ACR0	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6274	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13267	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945139	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002882	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3053	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	E. coli K-12 MG1655	1^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^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)
allS
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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_000913:531425..531465 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:b0504 (EcoliWiki Page)	NCBI GEO profiles for allS
microarray	GenExpDB:b0504 (EcoliWiki Page)	Summary of data for allS 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 allS Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6274	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3053	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0504
EcoGene	EcoGene:EG13267	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002882	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001742	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
Shigella flexneri	YBBS	From SHIGELLACYC
E. coli O157	YBBS	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)	PF03466 LysR substrate binding domain
Pfam (EcoliWiki Page)	PF00126 Bacterial regulatory helix-turn-helix protein, lysR 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 ^2.12 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.

allS: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 allS Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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