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

ABE-0003403 (rutF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0003403 showshow history
Names
rutF JW5138 ECK0998 ycdH b1007
Product
FMN reductase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 1069860 1070354 495 165
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR009002 (IPR009002 (DEPRECATED) FMN-binding split barrel-related) Apr 2008
Automated Process Approved IPR012349 (IPR012349 FMN-binding split barrel) Apr 2008
Automated Process Approved IPR002563 (IPR002563 Flavin reductase like domain) Apr 2008
Automated Process Approved IPR019917 (IPR019917 FMN reductase (NADH) RutF) Jul 2018
Automated Process Approved PF01613 (PF01613 Flavin reductase like domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002563
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR019917
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO molecular function GO:0008752 FMN reductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR019917
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0010181 FMN binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR012349
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016491 oxidoreductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002563
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Uncurated name rutF Published Annotation - PubMed ID: 16540542
Reference: Escherichia coli K-12 		Aug 2007
Person Approved synonym ycdH Published Annotation - Swiss-Prot Accession Number: P75893 Aug 2002
Person Approved synonym ECK0998 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW5138 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b1007 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product FMN reductase Protein Sequence Similarity - InterPro Domain: IPR019917
Reference: Escherichia coli K-12 MG1655 		Sep 2021
Person Uncurated alternate product name predicted oxidoreductase, flavin:NADH component Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Sep 2021
Automated Process Approved alternate product name flavin:NADH reductase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated alternate product name putative oxidoreductase component Published Annotation - Database Name: GenProtEC Jan 2006
Person Uncurated alternate product name putative flavin:NADH reductase Published Annotation - Swiss-Prot Accession Number: P75893 Jan 2006
Protein Family
Automated Process Approved protein family IPR009002 (DEPRECATED) FMN-binding split barrel-related Protein Sequence Similarity - InterPro Domain: IPR009002
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR012349 FMN-binding split barrel Protein Sequence Similarity - InterPro Domain: IPR012349
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF01613 Flavin reductase like domain Protein Sequence Similarity - PFAM Model Name: PF01613
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR002563 Flavin reductase like domain Protein Sequence Similarity - InterPro Domain: IPR002563
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR019917 FMN reductase (NADH) RutF Protein Sequence Similarity - InterPro Domain: IPR019917
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Uncurated EC number 1.5.1.42 Published Annotation - Swiss-Prot Accession Number: P75893
Reference: Escherichia coli K-12 		Dec 2011
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 ASAP:ABE-0003403 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:87081819 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946594 Published Annotation - Entrez Gene Database ID: 946594
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P75893 Published Annotation - Swiss-Prot Accession Number: P75893 Jan 2006
Automated Process Approved db xref EcoGene:EG13854 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P75893 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function enzyme; Pyrimidine nitrogen catabolism Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC74092.2 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Unknown Predicted by PSORTb - PSORTb Final_Score: 2.00
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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 Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR019917
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002563
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0010181 FMN binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR012349
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0008752 FMN reductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR019917
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0016491 oxidoreductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002563
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-0003202 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000421 rutF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001388 rutF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004039 rutF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003043 rutF CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0001538 rutF CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0002119 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007276 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0001015 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005473 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000933 ycdH CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003370 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008431 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008021 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007133 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0077238 rutF CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001092 rutF CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001336 ycdH CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009445 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008303 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0001109 rutF CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0005568 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005082 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0009951 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008991 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007596 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005557 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0006084 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006353 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0009852 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006285 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006939 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006403 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0008361 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0007817 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0025311 CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007475 rutF CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005799 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0001341 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000967 rutF CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001018 ycdH CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001308 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001302 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001258 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0001095 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001095 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002117 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0131181 CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000613 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0001073 nmoB CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0002280 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001037 ycdH CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0003994 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0000725 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0004420 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0004137 ycdH CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0004807 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0004154 ycdH CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0004418 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009152 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0003140 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0286476 CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0004568 ycdH CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0062421 hpaC CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0001248 hpaC CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0000550 hpaC CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0003700 hpaC CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0007057 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0138993 hpaC CDS
Person Uncurated Go view Pseudomonas savastanoi NCPPB 3335 AER-0003526 CDS
Person Uncurated Go view Pseudomonas stutzeri A1501 AFF-0003637 CDS
Person Uncurated Go view Pseudomonas syringae pv. phaseolicola 1448A AFH-0001066 hpaC CDS
Person Uncurated Go view Pseudomonas syringae pv. syringae B728a AFG-0002366 CDS
Person Approved Go view Pseudomonas syringae pv. tomato DC3000 ADG-0001182 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0000362 hpaC CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004864 CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0001104 CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0072120 CDS
Person Approved Go view Shigella flexneri 301 ABT-0087360 CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0001080 CDS
Person Approved Go view Shigella sonnei 046 ADD-0001101 CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0001370 ycdH CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0005713 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0005753 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0001384 CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0001647 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0007207 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0008329 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0004082 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0008037 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0007091 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0006238 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0002830 hpaC CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0001620 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0006336 hpaC CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0002097 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0002908 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
FB22117mutantTn5 InsertionRequest the StrainABE-0003403rutFb1007::Tn5KAN-I-SceI at position 214 in Minus orientation ,+ pKD465Blattner Laboratory
FB22265mutantTn5 InsertionRequest the StrainABE-0003403rutFb1007::Tn5KAN-I-SceI at position 214 in Minus 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 1064860 to 1075354
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0003384yccECDSforward10640361065292Downstream
ABE-0003388agpCDSforward10655851066826Downstream
ABE-0003390yccJCDScomplement10668641067091Downstream
ABE-0003392wrbACDScomplement10671121067708Downstream
ABE-0285039ymdFCDSforward10680811068254Downstream
ABE-0285419repeat_regionforward10683541068451Downstream
ABE-0003401rutGCDScomplement10685111069839Downstream
ABE-0003403rutFCDScomplement10698601070354Matches
ABE-0003407rutECDScomplement10703651070955Upstream
ABE-0003410rutDCDScomplement10709651071765Upstream
ABE-0003412rutCCDScomplement10717731072159Upstream
ABE-0003414rutBCDScomplement10721711072863Upstream
ABE-0003416rutACDScomplement10728631074011Upstream
ABE-0003422rutRCDSforward10742421074880Upstream
ABE-0285420repeat_regionforward10748851074912Upstream
ABE-0003424putACDScomplement10749201078882Upstream
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.