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Product(s) |

Expression|

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Standard Name	yggE
Gene Synonym(s)	ECK2918, b2922, JW2889, yggE'^[1]^[2]
Product Desc.	conserved protein^[2]; putative actin^[3] Function unknown^[4]
Product Synonyms(s)	conserved protein^[1], B2922^[2]^[1], YggE^[2]^[1] , ECK2918, JW2889, b2922
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yggE^[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	yggE
Mnemonic	Systematic nomenclature
Synonyms	ECK2918, b2922, JW2889, yggE'^[1]^[2]
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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	66.07 minutes	MG1655: 3066102..3065362 <gbrowseImage> name=NC_000913:3065362..3066102 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2953831..2953091 <gbrowseImage> name=NC_012967:2953091..2953831 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2952510..2953250 <gbrowseImage> name=NC_012759:2952510..2953250 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3066736..3065996 <gbrowseImage> name=NC_007779:3065996..3066736 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3159972..3159232 <gbrowseImage> name=NC_010473:3159232..3159972 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)	Reference	Availability
ΔyggE (Keio:JW2889)	deletion	deletion	PMID:16738554	Shigen CGSC10240^[5]
ΔyggE773::kan			PMID:16738554	CGSC:104990
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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
JW2889	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAGTTCAAAGTTATCGCCCT Primer 2:CCTTGTGCTGCAGGTGTTTTAGC
1A2	Kohara Phage	Genobase	PMID:3038334
6C5	Kohara Phage	Genobase	PMID:3038334
recD1901::Tn10	Linked marker	CAG12135 = CGSC7429^[5]	est. P1 cotransduction: % ^[6]
speA210::Tn10	Linked marker	CAG12168 = CGSC7431^[5]	est. P1 cotransduction: 48% ^[6] Synonyms:zgd-210::Tn10, zgf-210::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:EG11244	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11244	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001220	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947398	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1225	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009588	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	YggE
Synonyms	conserved protein^[1], B2922^[2]^[1], YggE^[2]^[1] , ECK2918, JW2889, b2922
Product description	conserved protein^[2]; putative actin^[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
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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	rhaS	PMID:16606699	Experiment(s):EBI-1144314
Protein	rhsA	PMID:16606699	Experiment(s):EBI-1144314
Protein	gltJ	PMID:16606699	Experiment(s):EBI-1144314
Protein	matC	PMID:16606699	Experiment(s):EBI-1144314
Protein	yfhM	PMID:16606699	Experiment(s):EBI-1144314
Protein	rplB	PMID:16606699	Experiment(s):EBI-1144314
Protein	wecG	PMID:16606699	Experiment(s):EBI-1144314
Protein	yggG	PMID:16606699	Experiment(s):EBI-1144314
Protein	rpmB	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsT	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplT	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsP	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsH	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsN	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplA	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):7.841105
Protein	rpsI	PMID:19402753	LCMS(ID Probability):99.1 MALDI(Z-score):6.318202
Protein	rpsF	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplX	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplM	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplU	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsK	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):9.594984
Protein	rpsM	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsC	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplS	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsD	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):36.905054
Protein	rfaD	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):24.247664
Protein	hupB	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplB	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplD	PMID:19402753	LCMS(ID Probability):99.6
Protein	yggL	PMID:19402753	LCMS(ID Probability):99.6
Protein	infC	PMID:19402753	LCMS(ID Probability):99.6
Protein	trkG	PMID:19402753	LCMS(ID Probability):98.8
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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 MKFKVIALAA LMGISGMAAQ ANELPDGPHI VTSGTASVDA VPDIATLAIE VNVAAKDAAT AKKQADERVA QYISFLELNQ IAKKDISSAN LRTQPDYDYQ DGKSILKGYR AVRTVEVTLR QLDKLNSLLD GALKAGLNEI RSVSLGVAQP DAYKDKARKA AIDNAIHQAQ ELANGFHRKL GPVYSVRYHV SNYQPSPMVR MMKADAAPVS AQETYEQAAI QFDDQVDVVF QLEPVDQQPA KTPAAQ
Length	246
Mol. Wt	26.635 kDa
pI	6.5 (calculated)
Extinction coefficient	13,410 (calc based on 9 Y, 0 W, and 0 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	30..232	PF04402 Protein of unknown function (DUF541)		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=yggE 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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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:16130823	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947398	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009588	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ADS6	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11244	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11244	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947398	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001220	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1225	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 MC4100	2.51E+03	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	Ecoli K-12	2.968+/-0.044	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.121621622	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	2830	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	1776	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	1703	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)
yggE
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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_000913:3066082..3066122 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:b2922 (EcoliWiki Page)	NCBI GEO profiles for yggE
microarray	GenExpDB:b2922 (EcoliWiki Page)	Summary of data for yggE 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 (3066026..3066222) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ06; Well:E2^[7]
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Notes

Accessions Related to yggE Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11244	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1225	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2922
EcoGene	EcoGene:EG11244	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001220	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009588	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
Anopheles gambiae	ENSANGP00000026852 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YGGE	From SHIGELLACYC
E. coli O157	YGGE	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)	PF04402 Protein of unknown function (DUF541)
EcoCyc	EcoCyc:EG11244	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11244	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001220	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1225	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009588	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 ^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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

yggE: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 yggE Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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