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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	nupX
Gene Synonym(s)	yeiJ, ECK2154, b2161, JW2148^[1]^[2], JW2148
Product Desc.	YeiJ NUP transporter^[2]; putative pyrimidine nucleoside transporter^[3] Nucleoside transporter; in operon with rihB; silent (uninduced) gene^[4]
Product Synonyms(s)	predicted nucleoside transporter^[1], B2161^[2]^[1], NupX^[2]^[1], YeiJ^[2]^[1] , ECK2154, JW2148, yeiJ, b2161
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yeiJ^[2]
Regulation/Activity
Quick Links
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Notes

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NupX (YeiJ) was reported to be a nucleoside transporter, and to be co-expressed with rihB (as indicated by polarity of an IS50 insertion upstream of rihB on nupX (yeiJ) expression, B. Mygind and C. Petersen, preliminary results cited in Petersen (2001). nupC, nupX, and yegT are paralogs. CNT family.^[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	nupX
Mnemonic	Nucleoside permease
Synonyms	yeiJ, ECK2154, b2161, JW2148^[1]^[2], JW2148
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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	48.51 minutes	MG1655: 2252167..2250917 <gbrowseImage> name=NC_000913:2250917..2252167 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2204082..2205332 <gbrowseImage> name=NC_012967:2204082..2205332 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2143400..2144650 <gbrowseImage> name=NC_012759:2143400..2144650 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2257479..2256229 <gbrowseImage> name=NC_007779:2256229..2257479 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	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔnupX788::kan					PMID:16738554	CGSC:106274
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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:
5H11	Kohara Phage	Genobase	PMID:3038334
4F2	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:EG12029	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12029	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001946	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946655	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1964	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007152	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	YeiJ
Synonyms	predicted nucleoside transporter^[1], B2161^[2]^[1], NupX^[2]^[1], YeiJ^[2]^[1] , ECK2154, JW2148, yeiJ, b2161
Product description	YeiJ NUP transporter^[2]; putative pyrimidine nucleoside transporter^[3] Nucleoside transporter; in operon with rihB; silent (uninduced) gene^[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:0001882	nucleoside binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011642	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005415	nucleoside:sodium symporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002668	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005415	nucleoside:sodium symporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008276	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005415	nucleoside:sodium symporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018270	F	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:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002668	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008276	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018270	P	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:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002668	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008276	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018270	C	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
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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 to the periplasm with 8 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 MDVMRSVLGM VVLLTIAFLL SVNKKKISLR TVGAALVLQV VIGGIMLWLP PGRWVAEKVA FGVHKVMAYS DAGSAFIFGS LVGPKMDTLF DGAGFIFGFR VLPAIIFVTA LVSILYYIGV MGILIRILGG IFQKALNISK IESFVAVTTI FLGQNEIPAI VKPFIDRLNR NELFTAICSG MASIAGSTMI GYAALGVPVE YLLAASLMAI PGGILFARLL SPATESSQVS FNNLSFTETP PKSIIEAAAT GAMTGLKIAA GVATVVMAFV AIIALINGII GGVGGWFGFE HASLESILGY LLAPLAWVMG VDWSDANLAG SLIGQKLAIN EFVAYLNFSP YLQTAGTLDA KTVAIISFAL CGFANFGSIG VVVGAFSAVA PHRAPEIAQL GLRALAAATL SNLMSATIAG FFIGLA
Length	416
Mol. Wt	43.411 kDa
pI	8.9 (calculated)
Extinction coefficient	39,420 - 39,670 (calc based on 8 Y, 5 W, and 2 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	References
Domain	8..82	PF01773 Na+ dependent nucleoside transporter N-terminus	PMID:19920124
Domain	201..413	PF07662 Na+ dependent nucleoside transporter C-terminus	PMID:19920124
Domain	99..197	PF07670 Nucleoside recognition	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=nupX 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:16130099	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946655	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007152	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P33021	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12029	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12029	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946655	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001946	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1964	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	0^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	1^a	molecules/cell/generation	Medium: MOPS Minimal 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	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)
yeiJ
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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.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2252147..2252187 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:b2161 (EcoliWiki Page)	NCBI GEO profiles for nupX
microarray	GenExpDB:b2161 (EcoliWiki Page)	Summary of data for nupX 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 (2252072..2252339) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ14; Well:H9^[6]
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Notes

Accessions Related to nupX Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12029	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1964	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2161
EcoGene	EcoGene:EG12029	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001946	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007152	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	ENSANGP00000023233 (score: 1.000; bootstrap: 97%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000006349 (score: 1.000; bootstrap: 93%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000024328 (score: 1.000; bootstrap: 100%) ENSBTAP00000021720 (score: 0.391) ENSBTAP00000038591 (score: 0.391)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00040976 (score: 1.000; bootstrap: 100%) WBGene00040975 (score: 0.676)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00017867 (score: 1.000; bootstrap: 100%) WBGene00017868 (score: 0.634)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000019075 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000007456 (score: 1.000; bootstrap: 99%) ENSCINP00000007491 (score: 0.502)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0025709 (score: 1.000; bootstrap: 100%) FBgn0033371 (score: 0.216)	From Inparanoid:20070104
Drosophila pseudoobscura	GA20810-PA (score: 1.000; bootstrap: 100%) GA11193-PA (score: 0.217)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000020536 (score: 1.000; bootstrap: 100%) ENSGALP00000003966 (score: 0.301)	From Inparanoid:20070104
Homo sapiens	ENSP00000348533 (score: 1.000; bootstrap: 100%) ENSP00000286749 (score: 0.247) ENSP00000315006 (score: 0.247)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000011390 (score: 1.000; bootstrap: 100%) ENSMMUP00000001717 (score: 0.254) ENSMMUP00000022047 (score: 0.195)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000010361 (score: 1.000; bootstrap: 100%) ENSMODP00000022001 (score: 0.283) ENSMODP00000024166 (score: 0.259) ENSMODP00000021999 (score: 0.170)	From Inparanoid:20070104
Mus musculus	MGI:2137361 (score: 1.000; bootstrap: 100%) MGI:3605073 (score: 0.257) MGI:1913105 (score: 0.253)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000046380 (score: 1.000; bootstrap: 100%) ENSPTRP00000012022 (score: 0.250)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000025745 (score: 1.000; bootstrap: 100%) ENSRNOP00000025621 (score: 0.258) ENSRNOP00000024658 (score: 0.256)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000127158 (score: 1.000; bootstrap: 100%) NEWSINFRUP00000180211 (score: 0.212)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00011352001 (score: 1.000; bootstrap: 100%) GSTENP00035650001 (score: 0.202)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000025648 (score: 1.000; bootstrap: 100%) ENSXETP00000021617 (score: 0.336)	From Inparanoid:20070104
Shigella flexneri	YEIJ	From SHIGELLACYC
E. coli O157	YEIJ	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)	PF01773 Na+ dependent nucleoside transporter N-terminus
Pfam (EcoliWiki Page)	PF07662 Na+ dependent nucleoside transporter C-terminus
Pfam (EcoliWiki Page)	PF07670 Nucleoside recognition
EcoCyc	EcoCyc:EG12029	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12029	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001946	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1964	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007152	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
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

nupX: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 nupX Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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