Escherichia coli K-12 MG1655
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Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0007925 (xapB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0007925 showshow history
Names
xapB JW2397 ECK2400 b2406
Product
xanthosine transporter
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 2522729 2523985 1257 419
Sequence

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View sequence with flanking regions: bases upstream and bases downstream

Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR004740 (IPR004740 Nucleoside:H+ symporter) Apr 2008
Automated Process Approved IPR007114 (IPR007114 (DEPRECATED) Major facilitator superfamily) Apr 2008
Automated Process Approved IPR036259 (IPR036259 MFS transporter superfamily) Jul 2018
Automated Process Approved PF03825 (PF03825 Nucleoside H+ symporter) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR007114
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0015858 nucleoside transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0016021 integral component of membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO cellular component GO:0019866 organelle inner membrane Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR007114
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0005337 nucleoside transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name xapB Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK2400 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2397 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2406 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product xanthosine transporter Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name xanthosine permease Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name xanthosine permease (MFS family) Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR004740 Nucleoside:H+ symporter Protein Sequence Similarity - InterPro Domain: IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR036259 MFS transporter superfamily Protein Sequence Similarity - InterPro Domain: IPR036259
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF03825 Nucleoside H+ symporter Protein Sequence Similarity - PFAM Model Name: PF03825
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR007114 (DEPRECATED) Major facilitator superfamily Protein Sequence Similarity - InterPro Domain: IPR007114
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Uncurated MultiFun 1.1.1 (metabolism; carbon utilization; carbon compounds) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.S.189 (transport; substrate; xanthosine) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.2.A.1 (transport; Electrochemical potential driven transporters; Porters (Uni-, Sym- and Antiporters); The Major Facilitator Superfamily (MFS)) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 6.1 (cell structure; membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.3 (location of gene products; inner membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Automated Process Approved codon start 1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG13159 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P45562 Published Annotation - Swiss-Prot Accession Number: P45562 Jan 2005
Automated Process Approved db xref GeneID:946868 Published Annotation - Entrez Gene Database ID: 946868
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1788745 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P45562 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0007925 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function transport; Transport of small molecules: Carbohydrates, organic acids, alcohols Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note xanthosine permease; GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0019866 - organelle inner membrane; GO_process: GO:0016052 - carbohydrate catabolic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75459.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Membrane Predicted by PSORTb - PSORTb Final_Score: 10.00
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 2009
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 2009
Person Uncurated subsystem component of in silico model iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR007114
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0015858 nucleoside transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO cellular component GO:0019866 organelle inner membrane Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO cellular component GO:0016021 integral component of membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR007114
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0005337 nucleoside transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004740
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0006800 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000386 xapB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001902 xapB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0003679 xapB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003828 xapB CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0001413 xapB CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0002811 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0003253 nupG_2 CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0003936 nupG_1 CDS
Automated Process Approved Go view Escherichia albertii TW07627 AFX-0003125 nupG CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0002449 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008821 nupG CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0002372 xapB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001891 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0079083 xapB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003226 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0002748 xapB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0009955 xapB CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0002955 CDS
Person Approved Go view Escherichia coli K-12 DH10B AEC-0002262 xapB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002483 xapB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002971 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0002771 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002744 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002559 xapB CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0002746 xapB CDS
Automated Process Approved Go view Salmonella Agona SL483 BBX-0006733 nupG CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0002831 xapB CDS
Automated Process Approved Go view Salmonella Dublin CT_02021853 BCB-0007047 nupG CDS
Automated Process Approved Go view Salmonella Enteritidis P125109 BCF-0007780 xapB CDS
Automated Process Approved Go view Salmonella Gallinarum 287/91 BCG-0007388 xapB CDS
Automated Process Approved Go view Salmonella Hadar RI_05P066 BBT-0006099 nupG CDS
Automated Process Approved Go view Salmonella Heidelberg SL476 BBV-0007042 nupG CDS
Automated Process Approved Go view Salmonella Heidelberg SL486 BBW-0006924 nupG CDS
Automated Process Approved Go view Salmonella Javiana GA_MM04042433 BCA-0007139 nupG CDS
Automated Process Approved Go view Salmonella Kentucky CDC 191 BBZ-0006391 nupG CDS
Automated Process Approved Go view Salmonella Kentucky CVM29188 BBP-0006166 nupG CDS
Automated Process Approved Go view Salmonella Newport SL254 BBQ-0006976 nupG CDS
Automated Process Approved Go view Salmonella Newport SL317 BBR-0008161 nupG CDS
Automated Process Approved Go view Salmonella Paratyphi B SPB7 BCC-0000541 CDS
Automated Process Approved Go view Salmonella Saintpaul SARA23 BBN-0007222 nupG CDS
Automated Process Approved Go view Salmonella Saintpaul SARA29 BBM-0004960 nupG CDS
Automated Process Approved Go view Salmonella Schwarzengrund CVM19633 BBO-0006732 nupG CDS
Automated Process Approved Go view Salmonella Schwarzengrund SL480 BBY-0008091 nupG CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0110561 xapB CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0082148 xapB CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0002981 xapB CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0097711 xapB CDS
Automated Process Approved Go view Salmonella Virchow SL491 BBS-0006853 nupG CDS
Automated Process Approved Go view Salmonella Weltevreden SL484 BBU-0004355 nupG CDS
Automated Process Approved Go view Salmonella enterica CVM23701 BBL-0006021 nupG CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0001633 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0000441 xapB CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0002673 xapB CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0001255 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0006813 xapB CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0001270 xapB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0001513 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0003458 CDS
Experimental to toptop
SelectSetNameSetDetailsNotes
stringent responsetranscriptional profile of the stringent responseNone
Recombinant heat-shock dataexpression data for recombinant strain under heat shockThese data are from the Harcum laboratory. (Jeremy Glasner)
Suppressor tRNA expressionexperiment comparing transcript levels in cells with and without suppressor tRNA expressionThese data were reported in the paper: Herring and Blattner. 2004. Global transcriptional effects of a suppressor tRNA and the inactivation of the regulator frmR. J. Bacteriol. 186(20):6714-20. Link to Abstract (Jeremy Glasner)
Recombinant E. coli expressionexperiment comparing expression of wild-type E. coli with the same strain harboring a plasmid that expresses protein when induced with IPTG These data were reported in the paper: F. T. Haddadin, S. W. Harcum (2005) Transcriptome profiles for high-cell-density recombinant and wild-type Escherichia coli, Biotechnology and Bioengineering, 90:127-153. Link to Abstract (Jeremy Glasner)
Aerobic shiftAerobic shiftThese data were reported in the paper: Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO. 2004. Integrating high-throughput and computational data elucidates bacterial networks. Nature. 2004 May 6;429(6987):92-6. Link to Abstract (Jeremy Glasner)
CalibratorCalibrated microarray experiments (50 hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
AffyData1Affymetrix Experiments (data from 41 chip hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB20784mutantTn5 InsertionRequest the StrainABE-0007925xapBxapB::Tn5KAN-2 at position 484 in Plus orientation ,+ pKD460Blattner Laboratory
Context Table to toptop

Listed below are features that lie nearby this feature. Features encoded in multiple intervals may appear more than once in the table. Features that span the origin will have a left endpoint greater than the right endpoint.

Features overlapping the region 2517729 to 2528985
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0007899pdeACDScomplement25156432517832Downstream
ABE-0007902alaXtRNAcomplement25180412518116Downstream
ABE-0007904alaWtRNAcomplement25181562518231Downstream
ABE-0007907yfeCCDSforward25184672518811Downstream
ABE-0007909yfeDCDSforward25188132519205Downstream
ABE-0007911gltXCDScomplement25192572520672Downstream
ABE-0007914valUtRNAforward25209312521006Downstream
ABE-0007916valXtRNAforward25210512521126Downstream
ABE-0007918valYtRNAforward25211732521248Downstream
ABE-0007920lysVtRNAforward25212532521328Downstream
ABE-0285515repeat_regionforward25215382521566Downstream
ABE-0007922xapRCDScomplement25215932522477Downstream
ABE-0007925xapBCDScomplement25227292523985Matches
ABE-0007927xapACDScomplement25240452524878Upstream
ABE-0007930yfeNCDSforward25251272525891Upstream
ABE-0007932yfeRCDScomplement25259302526856Upstream
ABE-0007936yfeHCDSforward25269462527944Upstream
ABE-0285067ypeBCDScomplement25279412528159Upstream
ABE-0007938ligACDScomplement25281612530176Upstream
Release Notes to toptop
All MG1655 annotations and sequence data are publicly available, and investigators can use these data in publications without contacting the genome curators. This version of the sequence was the source of GenBank record U00096.3. Ongoing annotation updates to that GenBank record are being generated from a collaboration that includes ASAP, EcoGene, the Coli Genetic Stock Center, EcoliHub, EcoCyc, RegulonDB and UniProtKB/Swiss-Prot.