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Expression|

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Standard Name	nepI
Gene Synonym(s)	yicM, ECK3653, b3662, JW5938^[1]^[2], gaiA, JW5938
Product Desc.	NepI MFS ribonucleoside transporter^[2]^[3] Purine ribonucleoside exporter; 6-mercaptopurine resistance^[4]
Product Synonyms(s)	predicted transporter^[1], B3662^[2]^[1], YicM^[2]^[1], NepI^[2]^[1] , ECK3653, gaiA, JW5938, yicM, b3662
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yicM^[2]
Regulation/Activity
Quick Links
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Notes

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Overexpression of nepI increases resistance to inosine and guanosine. Salmonella gaiA(nepI) is required for triggering apoptosis and bacterial survival in murine macrophages. Pathogenicity island eip (EAEC strain 042) has inserted in the yicS-nepI intergenic region. Major Facilitator Superfamily (MFS).^[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	nepI
Mnemonic	nucleoside efflux permease - inosine
Synonyms	yicM, ECK3653, b3662, JW5938^[1]^[2], gaiA, JW5938
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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	82.73 minutes	MG1655: 3839927..3838572 <gbrowseImage> name=NC_000913:3838572..3839927 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3800481..3801836 <gbrowseImage> name=NC_012967:3800481..3801836 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3726905..3728095 <gbrowseImage> name=NC_012759:3726905..3728095 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3798511..3799866 <gbrowseImage> name=NC_007779:3798511..3799866 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	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	AA change(s)	Phenotype: Description	Comments
nepIV158M	V158M	(in strain: BEN2908 / O2:K1:H5 / APEC)	Strain variation; seeded from UniProt:P0ADL1
nepIV182A	V182A	(in strain: BEN2908 / O2:K1:H5 / APEC)	Strain variation; seeded from UniProt:P0ADL1
nepII267V	I267V	(in strain: BEN2908 / O2:K1:H5 / APEC)	Strain variation; seeded from UniProt:P0ADL1
nepILI289FV	LI289FV	(in strain: BEN2908 / O2:K1:H5 / APEC)	Strain variation; seeded from UniProt:P0ADL1
nepIV293L	V293L	(in strain: BEN2908 / O2:K1:H5 / APEC)	Strain variation; seeded from UniProt:P0ADL1
nepIV322I	V322I	(in strain: BEN2908 / O2:K1:H5 / APEC)	Strain variation; seeded from UniProt:P0ADL1
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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:
1D11	Kohara Phage	Genobase	PMID:3038334
12D11	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:EG11689	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11689	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001632	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948213	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1640	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011967	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	YicM
Synonyms	predicted transporter^[1], B3662^[2]^[1], YicM^[2]^[1], NepI^[2]^[1] , ECK3653, gaiA, JW5938, yicM, b3662
Product description	NepI MFS ribonucleoside transporter^[2]^[3] Purine ribonucleoside exporter; 6-mercaptopurine resistance^[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:0005886	plasma membrane	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01189	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0813	P	Seeded from EcoCyc (v14.0)	complete
	GO:0015211	purine nucleoside transmembrane transporter activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01189	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9909	C	Seeded from EcoCyc (v14.0)	complete
	GO:0055085	transmembrane transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011701	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	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
plasma membrane	C-terminus localized in the cytoplasm with 12 predicted transmembrane domains	Daley et al. (2005) ^[5]
plasma membrane			From EcoCyc^[3]
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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 MDKTFTPHPV IFALFRFDLN SSSSNTVKVA KTLNASHISM LKWSAFPLKH ATGNTMSEFI AENRGADAIT RPNWSAVFSV AFCVACLIIV EFLPVSLLTP MAQDLGISEG VAGQSVTVTA FVAMFASLFI TQTIQATDRR YVVILFAVLL TLSCLLVSFA NSFSLLLIGR ACLGLALGGF WAMSASLTMR LVPPRTVPKA LSVIFGAVSI ALVIAAPLGS FLGELIGWRN VFNAAAVMGV LCIFWIIKSL PSLPGEPSHQ KQNTFRLLQR PGVMAGMIAI FMSFAGQFAF FTYIRPVYMN LAGFGVDGLT LVLLSFGIAS FIGTSLSSFI LKRSVKLALA GAPLILAVSA LVLTLWGSDK IVATGVAIIW GLTFALVPVG WSTWITRSLA DQAEKAGSIQ VAVIQLANTC GAAIGGYALD NIGLTSPLML SGTLMLLTAL LVTAKVKMKK S
Length	451
Mol. Wt	47.932 kDa
pI	10.1 (calculated)
Extinction coefficient	55,460 - 56,210 (calc based on 4 Y, 9 W, and 6 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	23..347	PF07690 Major Facilitator Superfamily		PMID:19920124
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<motif_map/>

Click the image to view raw output from TMHMM.

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=nepI 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:145698327	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948213	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011967	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ADL1	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11689	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11689	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948213	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001632	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1640	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 MG1655	168	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	37	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	80	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)
yicM
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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_000913:3839907..3839947 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:b3662 (EcoliWiki Page)	NCBI GEO profiles for nepI
microarray	GenExpDB:b3662 (EcoliWiki Page)	Summary of data for nepI 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 nepI Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11689	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1640	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3662
EcoGene	EcoGene:EG11689	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001632	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011967	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	ENSANGP00000016901 (score: 1.000; bootstrap: 100%) ENSANGP00000001263 (score: 0.301) ENSANGP00000028301 (score: 0.170) ENSANGP00000020222 (score: 0.089)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000006221 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000017607 (score: 1.000; bootstrap: 100%) ENSCAFP00000014908 (score: 0.628)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000008535 (score: 1.000; bootstrap: 100%) ENSGALP00000002007 (score: 0.798)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000012321 (score: 1.000; bootstrap: 100%) ENSMODP00000011775 (score: 0.596)	From Inparanoid:20070104
Mus musculus	MGI:106677 (score: 1.000; bootstrap: 100%) MGI:106684 (score: 0.600) MGI:1101061 (score: 0.286)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000005256 (score: 1.000; bootstrap: 100%) ENSPTRP00000004288 (score: 0.194)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000011983 (score: 1.000; bootstrap: 100%) ENSRNOP00000016193 (score: 0.611) ENSRNOP00000034949 (score: 0.288)	From Inparanoid:20070104
Shigella flexneri	YICM	From SHIGELLACYC
E. coli O157	YICM	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
Panther (EcoliWiki Page)	PTHR24003:SF349
Superfamily (EcoliWiki Page)	SUPERFAMILY:103473
Pfam (EcoliWiki Page)	PF07690 Major Facilitator Superfamily
EcoCyc	EcoCyc:EG11689	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11689	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001632	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1640	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011967	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 ^1.8 ^1.9 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 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.
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

nepI: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 nepI Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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