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Standard Name	ydiS
Gene Synonym(s)	ECK1697, b1699, JW1689^[1], JW1689
Product Desc.	putative flavoprotein^[2]^[3] Function unknown^[4]
Product Synonyms(s)	predicted oxidoreductase with FAD/NAD(P)-binding domain^[1], B1699^[2]^[1], YdiS^[2]^[1] , ECK1697, JW1689, b1699
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ydiQRST-fadK^[2], ydiQRSTD
Regulation/Activity
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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	ydiS
Mnemonic	Systematic nomenclature
Synonyms	ECK1697, b1699, JW1689^[1], JW1689
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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	38.35 minutes	MG1655: 1779419..1780708 <gbrowseImage> name=NC_000913:1779419..1780708 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1758663..1759952 <gbrowseImage> name=NC_012967:1758663..1759952 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1671478..1672767 <gbrowseImage> name=NC_012759:1671478..1672767 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1783109..1784398 <gbrowseImage> name=NC_007779:1783109..1784398 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1869990..1871279 <gbrowseImage> name=NC_010473:1869990..1871279 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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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
ΔydiS (Keio:JW1689)	deletion	deletion	PMID:16738554	Shigen CGSC9430^[5]
ΔydiS773::kan			PMID:16738554	CGSC:104334
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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
JW1689	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCGGATGACAAATTTGATGC Primer 2:CCTAGCGCGGTTGCTCCCTTAAT
8G8	Kohara Phage	Genobase	PMID:3038334
zdi-925::Tn10	Linked marker	CAG12151 = CGSC7385^[5]	est. P1 cotransduction: 92% ^[6] Synonyms:zdh-925::Tn10
zdj-276::Tn10	Linked marker	CAG18464 = CGSC7387^[5]	est. P1 cotransduction: 8% ^[6] Synonyms:zdi-276::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:G6922	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13978	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003510	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946212	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3735	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005671	Escherichia coli str. K-12 substr. MG1655
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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	YdiS
Synonyms	predicted oxidoreductase with FAD/NAD(P)-binding domain^[1], B1699^[2]^[1], YdiS^[2]^[1] , ECK1697, JW1689, b1699
Product description	putative flavoprotein^[2]^[3] 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:0004497	monooxygenase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002938	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016491	oxidoreductase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0560	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002938	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0560	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	glpD	PMID:16606699	Experiment(s):EBI-1140517
Protein	nadE	PMID:16606699	Experiment(s):EBI-1140517
Protein	tar	PMID:16606699	Experiment(s):EBI-1140517
Protein	ravA	PMID:16606699	Experiment(s):EBI-1140517
Protein	dld	PMID:16606699	Experiment(s):EBI-1140517
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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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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 MSDDKFDAIV VGAGVAGSVA ALVMARAGLD VLVIERGDSA GCKNMTGGRL YAHTLEAIIP GFAVSAPVER KVTREKISFL TEESAVTLDF HREQPDVPQH ASYTVLRNRL DPWLMEQAEQ AGAQFIPGVR VDALVREGNK VTGVQAGDDI LEANVVILAD GVNSMLGRSL GMVPASDPHH YAVGVKEVIG LTPEQINDRF NITGEEGAAW LFAGSPSDGL MGGGFLYTNK DSISLGLVCG LGDIAHAQKS VPQMLEDFKQ HPAIRPLISG GKLLEYSAHM VPEGGLAMVP QLVNEGVMIV GDAAGFCLNL GFTVRGMDLA IASAQAAATT VIAAKERADF SASSLAQYKR ELEQSCVMRD MQHFRKIPAL MENPRLFSQY PRMVADIMNE MFTIDGKPNQ PVRKMIMGHA KKIGLINLLK DGIKGATAL
Length	429
Mol. Wt	45.922 kDa
pI	5.9 (calculated)
Extinction coefficient	21,430 - 21,930 (calc based on 7 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..207	PF01494 FAD binding domain		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=ydiS taxon=562,83333 </beststructure>

Models

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Structure figures

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Notes

Gene Product Resources

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Resource type	Source	Notes/Reference
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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:16129655	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946212	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005671	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P77337	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6922	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13978	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946212	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003510	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3735	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	4	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	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)
ydiQRST-fadK
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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_000913:1779399..1779439 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:b1699 (EcoliWiki Page)	NCBI GEO profiles for ydiS
microarray	GenExpDB:b1699 (EcoliWiki Page)	Summary of data for ydiS 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 (1779294..1779435) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ06; Well:E10^[7]
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Notes

Accessions Related to ydiS Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6922	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3735	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1699
EcoGene	EcoGene:EG13978	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003510	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005671	Escherichia coli str. K-12 substr. MG1655
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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
Anopheles gambiae	ENSANGP00000013487 (score: 1.000; bootstrap: 100%) ENSANGP00000027597 (score: 0.234)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000032595 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT2G43400 (score: 1.000; bootstrap: 87%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000022179 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00038851 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00002855 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000012749 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000006140 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-040912-168 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040912-170 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0206234 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0033465 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA11432-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000015356 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000303552 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000006176 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000002450 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:106100 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q94HZ6 (score: 1.000; bootstrap: 100%) Q7XCT6 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000028416 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000013262 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YOR356W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC20G84c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000127725 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00024429001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000042213 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YDIS	From SHIGELLACYC
E. coli O157	YDIS	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)	PF01494 FAD binding domain
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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 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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

ydiS: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 ydiS Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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