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Standard Name	yigL
Gene Synonym(s)	ECK3820, b3826, JW5854^[1], JW5854
Product Desc.	sugar phosphatase^[2]^[3] Pyridoxal phosphate (PLP) phosphatase; weak phosphoramidase; additional in vitro substrates include: 2-deoxyglucose-6-P, glucose-6-P; physiological role unknown; HAD16^[4]
Product Synonyms(s)	predicted hydrolase^[1], B3826^[2]^[1], YigL^[2]^[1] , ECK3820, JW5854, b3826
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): pldB^[2]
Regulation/Activity
Quick Links
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Notes

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Haloacid dehalogenase (HAD) superfamily. In vitro activities demonstrated by Kuznetsova et al. (2005, 2006).^[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	yigL
Mnemonic	Systematic nomenclature
Synonyms	ECK3820, b3826, JW5854^[1], JW5854
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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	86.39 minutes	MG1655: 4008223..4009023 <gbrowseImage> name=NC_000913:4008223..4009023 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3974627..3975427 <gbrowseImage> name=NC_012967:3974627..3975427 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3897892..3898692 <gbrowseImage> name=NC_012759:3897892..3898692 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3626481..3625681 <gbrowseImage> name=NC_007779:3625681..3626481 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4107143..4107943 <gbrowseImage> name=NC_010473:4107143..4107943 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
ΔyigL (Keio:JW5854)	deletion	deletion			PMID:16738554	Shigen
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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
JW5854	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTACCAGGTTGTTGCGTCTGA Primer 2:CCtGATAAATAGAGTTTACGCAG
1C10	Kohara Phage	Genobase	PMID:3038334
7G3	Kohara Phage	Genobase	PMID:3038334
ilvD500::Tn10	Linked marker	CAG18431 = CGSC7462^[5]	est. P1 cotransduction: 7% ^[6] Synonyms:ilv500::Tn10
metEo-3079::Tn10	Linked marker	CAG18491 = CGSC7464^[5]	est. P1 cotransduction: 99% ^[6] Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.
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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:EG11470	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11470	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001432	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:2847768	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1438	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012500	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	YigL
Synonyms	predicted hydrolase^[1], B3826^[2]^[1], YigL^[2]^[1] , ECK3820, JW5854, b3826
Product description	sugar phosphatase^[2]^[3] Pyridoxal phosphate (PLP) phosphatase; weak phosphoramidase; additional in vitro substrates include: 2-deoxyglucose-6-P, glucose-6-P; physiological role unknown; HAD16^[4]
EC number (for enzymes)
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Notes

HAD indicates that YigL belongs to the haloacid dehalogenase-like phosphatase family.

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:0050308	sugar-phosphatase activity	PMID:16990279	IDA: Inferred from Direct Assay		F	In vitro substrates were glucose-6-phosphate and 2-deoxyglucose-6-phosphate (Figure 1).	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006379	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000150	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006379	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016787	hydrolase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000150	F	Seeded from EcoCyc (v14.0)	complete
	GO:0033883	pyridoxal phosphatase activity	PMID:16990279	IDA: Inferred from Direct Assay		F		complete
	GO:0046872	metal ion binding	PMID:16990279	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	PMID:16990279	IDA: Inferred from Direct Assay		F	Data in Supplementary Table 2. With glucose-6-P as substrate, the Km for Mg²⁺ was 1 mM.	complete
	GO:0050308	sugar-phosphatase activity	PMID:16990279	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0016791	phosphatase activity	PMID:16990279	IDA: Inferred from Direct Assay		F	YigL had phosphatase activity on 12 of the 80 phosphorylated compounds tested. These were (in decreasing order of activity): pyridoxal-5-P, glucose-6P, 2-deoxy-glucose-6-P, erythrose-4-P, mannose-6-P, CMP, Fructose-6-P, dGMP, dIMP, glucosamine-6-P, ribose-5-P, and GMP.	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
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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 MYQVVASDLD GTLLSPDHTL SPYAKETLKL LTARGINFVF ATGRHHVDVG QIRDNLEIKS YMITSNGARV HDLDGNLIFA HNLDRDIASD LFGVVNDNPD IITNVYRDDE WFMNRHRPEE MRFFKEAVFQ YALYEPGLLE PEGVSKVFFT CDSHEQLLPL EQAINARWGD RVNVSFSTLT CLEVMAGGVS KGHALEAVAK KLGYSLKDCI AFGDGMNDAE MLSMAGKGCI MGSAHQRLKD LHPELEVIGT NADDAVPHYL RKLYLS
Length	266
Mol. Wt	29.707 kDa
pI	4.4 (calculated)
Extinction coefficient	24,410 - 24,910 (calc based on 9 Y, 2 W, and 4 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
Domain	5..260	PF08282 haloacid dehalogenase-like hydrolase		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=yigL 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:49176424	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:2847768	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012500	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P27848	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11470	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11470	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:2847768	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001432	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1438	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 MC4100	1.60E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	789	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	295	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	532	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)
pldB
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Figure courtesy of RegulonDB

</protect>

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.

Transcription of yigL is decreased under anaerobic conditions independently of Fnr.^[7]

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:4008203..4008243 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:b3826 (EcoliWiki Page)	NCBI GEO profiles for yigL
microarray	GenExpDB:b3826 (EcoliWiki Page)	Summary of data for yigL 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 yigL Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11470	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1438	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3826
EcoGene	EcoGene:EG11470	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001432	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012500	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	YIGL	From SHIGELLACYC
E. coli O157	Z5347	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
Superfamily (EcoliWiki Page)	SUPERFAMILY:56784
Pfam (EcoliWiki Page)	PF08282 haloacid dehalogenase-like hydrolase
EcoCyc	EcoCyc:EG11470	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11470	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001432	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1438	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012500	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 ^2.3 ^2.4 ^2.5 ^2.6 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 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).
↑ Kang, Y et al. (2005) Genome-wide expression analysis indicates that FNR of Escherichia coli K-12 regulates a large number of genes of unknown function. J. Bacteriol. 187 1135-60 PubMed

yigL: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 yigL Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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