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

ABE-0011497 (treF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0011497 showshow history
Names
treF JW3487 ECK3504 b3519
Product
cytoplasmic trehalase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 3669592 3671241 1650 550
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001661 (IPR001661 Glycoside hydrolase, family 37) Apr 2008
Automated Process Approved IPR008928 (IPR008928 Six-hairpin glycosidase superfamily) Apr 2008
Automated Process Approved PF01204 (PF01204 Trehalase) Jul 2018
Automated Process Uncurated GH37 (GH37 Glycoside Hydrolase Family 37) 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:0005991 trehalose metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001661
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR008928
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0004555 alpha,alpha-trehalase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001661
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name treF Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK3504 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW3487 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3519 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product cytoplasmic trehalase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name cytoplasmic trehalase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name trehalase, cytoplasmic Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Uncurated protein family GH37 Glycoside Hydrolase Family 37 Protein Sequence Similarity - CAZy Model Name: GH37
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF01204 Trehalase Protein Sequence Similarity - PFAM Model Name: PF01204
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR008928 Six-hairpin glycosidase superfamily Protein Sequence Similarity - InterPro Domain: IPR008928
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR001661 Glycoside hydrolase, family 37 Protein Sequence Similarity - InterPro Domain: IPR001661
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 3.2.1.28 Published Annotation - Swiss-Prot Accession Number: P62601 Feb 2006
Person Uncurated MultiFun 7.1 (location of gene products; cytoplasm) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.1.1 (metabolism; carbon utilization; carbon compounds) 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 GI:1789936 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948037 Published Annotation - Entrez Gene Database ID: 948037
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0011497 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P62601 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG12245 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P62601 Published Annotation - Swiss-Prot Accession Number: P62601 Jan 2006
Person Approved function enzyme; Degradation of small molecules: Carbon compounds Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_component: GO:0005737 - cytoplasm; 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 AAC76544.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Periplasmic Predicted by PSORTb - PSORTb Final_Score: 9.44
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 iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Automated Process Approved GO biological process GO:0005991 trehalose metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001661
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR008928
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0004555 alpha,alpha-trehalase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001661
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-0004199 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002626 treF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002709 treF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0009200 treF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002591 treF CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0001348 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0003069 CDS
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0000258 treF CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0000762 treF CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000034 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0297124 treF CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0003477 treF CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0003153 treF CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001342 treF CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0004797 treF CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003657 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0007561 treF CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003579 treF CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0000661 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0005548 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008281 treF CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005341 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0080506 treF CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004013 treF CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004662 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006838 treF CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005214 treF CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004001 treF CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008440 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0004833 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008214 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006729 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006275 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005150 treF CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009716 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005232 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0007528 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005312 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0005377 treF CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005218 treF CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005107 treF CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005705 treF CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028579 treF CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005435 treF CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008411 treF CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004341 treF CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003279 treF CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003850 treF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004192 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004181 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004096 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004040 treF CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178180 treF CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003859 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003820 treF CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0134471 treF CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0002756 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004060 treF CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0003917 treF CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002193 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0002504 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0002773 treF CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0002529 treF CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0001465 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0003348 treF CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0000855 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0011017 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000150 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0290378 treF CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0006353 treF CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007977 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004226 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0004132 treF CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008225 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0011250 treF CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0011709 treF CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0005272 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008275 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0005624 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0006178 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006828 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007370 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008230 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0006620 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003492 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0003458 treF CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004491 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008396 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0004596 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007866 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0004670 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0113831 treF CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0085640 treF CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0004340 treF CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0101158 treF CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005618 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0005039 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005191 CDS
Person Approved Go view Shigella boydii 227 ADV-0003840 treF CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0009343 treF CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003341 treF CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075509 treF CDS
Person Approved Go view Shigella flexneri 301 ABT-0089778 treF CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003792 treF CDS
Person Approved Go view Shigella sonnei 046 ADD-0003886 treF CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0004419 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0001199 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
FB21254mutantTn5 InsertionRequest the StrainABE-0011497treFtreF::Tn5KAN-I-SceI at position 1520 in Plus orientation ,- pKD465Blattner Laboratory
FB21255mutantTn5 InsertionRequest the StrainABE-0011497treFtreF::Tn5KAN-I-SceI at position 1520 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 3664592 to 3676241
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0011482gadWCDScomplement36638903664618Upstream
ABE-0047272gadYncRNAforward36648643664968Upstream
ABE-0011487gadXCDScomplement36649863665810Upstream
ABE-0011490gadACDScomplement36661803667580Upstream
ABE-0011493ccpCDScomplement36677913669188Upstream
ABE-0011497treFCDSforward36695923671241Matches
ABE-0011499yhjBCDScomplement36712923671894Downstream
ABE-0011503rcdBCDSforward36724143673313Downstream
ABE-0011505yhjDCDSforward36733623674375Downstream
ABE-0285615repeat_regionforward36743813674473Downstream
ABE-0011509yhjECDSforward36747863676108Downstream
ABE-0285616repeat_regionforward36761213676281Downstream
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.