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Expression|

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Standard Name	yqeB
Gene Synonym(s)	ECK2871, b2875, JW2843^[1], JW2843
Product Desc.	conserved protein with NAD(P)-binding Rossman fold^[2]; putative synthase with NAD(P)-binding Rossman fold^[3] Function unknown^[4]
Product Synonyms(s)	conserved protein with NAD(P)-binding Rossman fold^[1], B2875^[2]^[1], YqeB^[2]^[1] , ECK2871, JW2843, b2875
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yqeB^[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	yqeB
Mnemonic	Systematic nomenclature
Synonyms	ECK2871, b2875, JW2843^[1], JW2843
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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	64.89 minutes	MG1655: 3012261..3010636 <gbrowseImage> name=NC_000913:3010636..3012261 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2899994..2898369 <gbrowseImage> name=NC_012967:2898369..2899994 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2897784..2899409 <gbrowseImage> name=NC_012759:2897784..2899409 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3012895..3011270 <gbrowseImage> name=NC_007779:3011270..3012895 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3106131..3104506 <gbrowseImage> name=NC_010473:3104506..3106131 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
ΔyqeB (Keio:JW2843)	deletion	deletion	PMID:16738554	Shigen CGSC10211^[5]
ΔyqeB726::kan			PMID:16738554	CGSC:105960
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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
JW2843	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAATATTTTCACAGAGGCTGC Primer 2:CCAGCCACTTCCAGCACTTCTTT
10D8	Kohara Phage	Genobase	PMID:3038334
6A1	Kohara Phage	Genobase	PMID:3038334
recD1901::Tn10	Linked marker	CAG12135 = CGSC7429^[5]	est. P1 cotransduction: 4% ^[6]
speA210::Tn10	Linked marker	CAG12168 = CGSC7431^[5]	est. P1 cotransduction: 1% ^[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:G7494	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13058	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004057	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947357	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2870	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009441	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	YqeB
Synonyms	conserved protein with NAD(P)-binding Rossman fold^[1], B2875^[2]^[1], YqeB^[2]^[1] , ECK2871, JW2843, b2875
Product description	conserved protein with NAD(P)-binding Rossman fold^[2]; putative synthase with NAD(P)-binding Rossman fold^[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	Aspect	Status
	GO:0003674	biological process	n/a	ND: No biological Data available	P	Missing: reference
	GO:0005575	cellular component	n/a	ND: No biological Data available	C	Missing: reference
	GO:0008150	biological process	n/a	ND: No biological Data available	P	Missing: reference
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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
Protein	htpG		PMID:16606699	Experiment(s):EBI-1144176
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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 MNIFTEAAKL EEQNCPFAMA QIVDSRGSTP RHSAQMLVRA DGSIVGTIGG GMVERKVIEE SLQALQERKP RLFHGRMARN GADAVGSDCG GAMSVFISVH GMRPRLVLIG AGHVNRAIAQ SAALLGFDIA VADIYRESLN PELFPPSTTL LHAESFGAAV EALDIRPDNF VLIATNNQDR EALDKLIEQP IAWLGLLASR RKVQLFLRQL REKGVAEEHI ARLHAPVGYN IGAETPQEIA ISVLAEILQV KNNAPGGLMM KPSHPSGHQL VVIRGAGDIA SGVALRLYHA GFKVIMLEVE KPTVIRCTVA FAQAVFDGEM TVEGVTARLA TSSAEAMKLT ERGFIPVMVD PACSLLDELK PLCVVDAILA KQNLGTRADM APVTIALGPG FTAGKDCHAV IETNRGHWLG QVIYSGCAQE NTGVPGNIMG HTTRRVIRAP AAGIMRSNVK LGDLVKEGDV IAWIGEHEIK APLTGMVRGL LNDGLAVVGG FKIGDIDPRG ETADFTSVSD KARAIGGGVL EALMMLMHQG VKATKEVLEV A
Length	541
Mol. Wt	57.681 kDa
pI	6.8 (calculated)
Extinction coefficient	22,460 - 23,335 (calc based on 4 Y, 3 W, and 7 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	8..77	PF02625 XdhC and CoxI 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=yqeB 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:16130777	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947357	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009441	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:Q46808	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7494	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13058	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947357	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004057	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2870	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	Ecoli K-12	1.281+/-0.058	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.002153846	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	7	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	9	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)
yqeB
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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_000913:3012241..3012281 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:b2875 (EcoliWiki Page)	NCBI GEO profiles for yqeB
microarray	GenExpDB:b2875 (EcoliWiki Page)	Summary of data for yqeB 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 yqeB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G7494	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2870	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2875
EcoGene	EcoGene:EG13058	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004057	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009441	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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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
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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:53187
Pfam (EcoliWiki Page)	PF02625 XdhC and CoxI family
EcoCyc	EcoCyc:G7494	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13058	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004057	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2870	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009441	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 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).

yqeB: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 yqeB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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