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

ABE-0007098 (preA) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0007098 showshow history
Names
preA JW2134 ECK2140 yeiA b2147
Product
NAD-dependent dihydropyrimidine dehydrogenase subunit
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2235265 2236500 1236 412
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR012135 (IPR012135 Dihydroorotate dehydrogenase, class 1/ 2) Apr 2008
Automated Process Approved IPR005720 (IPR005720 Dihydroorotate dehydrogenase domain) Apr 2008
Automated Process Approved IPR001450 (IPR001450 (DEPRECATED) 4Fe-4S binding domain) Apr 2008
Automated Process Approved IPR001295 (IPR001295 Dihydroorotate dehydrogenase, conserved site) Apr 2008
Automated Process Approved IPR013785 (IPR013785 Aldolase-type TIM barrel) Apr 2008
Automated Process Approved PF01180 (PF01180 Dihydroorotate dehydrogenase) Jul 2018
Automated Process Approved PF14697 (PF14697 4Fe-4S dicluster domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR005720
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006207 'de novo' pyrimidine nucleobase biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006222 UMP biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR012135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016627 oxidoreductase activity, acting on the CH-CH group of donors GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR005720
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0051536 iron-sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0009055 electron transfer activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004152 dihydroorotate dehydrogenase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR012135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004158 dihydroorotate oxidase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Automated Process Approved name preA Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym yeiA Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK2140 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2134 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2147 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product NAD-dependent dihydropyrimidine dehydrogenase subunit Published Annotation - EcoCyc Accession Number: EG11289
Reference: Escherichia coli K-12 MG1655 		Jan 2021
Person Uncurated alternate product name putative dihydropyrimidine dehydrogenase, FMN-linked Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name predicted oxidoreductase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name putative oxidoreductase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Automated Process Approved alternate product name dihydropyrimidine dehydrogenase, NADH-dependent, subunit C Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Protein Family
Automated Process Approved protein family PF01180 Dihydroorotate dehydrogenase Protein Sequence Similarity - PFAM Model Name: PF01180
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF14697 4Fe-4S dicluster domain Protein Sequence Similarity - PFAM Model Name: PF14697
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001295 Dihydroorotate dehydrogenase, conserved site Protein Sequence Similarity - InterPro Domain: IPR001295
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR013785 Aldolase-type TIM barrel Protein Sequence Similarity - InterPro Domain: IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR001450 (DEPRECATED) 4Fe-4S binding domain Protein Sequence Similarity - InterPro Domain: IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR005720 Dihydroorotate dehydrogenase domain Protein Sequence Similarity - InterPro Domain: IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR012135 Dihydroorotate dehydrogenase, class 1/ 2 Protein Sequence Similarity - InterPro Domain: IPR012135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Uncurated EC number 1.3.1.1 Protein Sequence Similarity - Swiss-Prot Accession Number: P25889
Reference: Escherichia coli K-12 MG1655 		Mar 2014
Automated Process Uncurated EC number 1.3.-.- Published Annotation - Database Name: EC2GO: GO:0016627
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 1.7.1 (metabolism; central intermediary metabolism; unassigned reversible reactions) 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:EG11289 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0007098 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P25889 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P25889 Published Annotation - Swiss-Prot Accession Number: P25889 Jan 2005
Automated Process Approved db xref GeneID:949037 Published Annotation - Entrez Gene Database ID: 949037
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:87082059 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function enzyme; pyrimidine metabolism Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note putative oxidoreductase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75208.2 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 8.96
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 Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013785
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: IPR005720
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:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006222 UMP biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR012135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006207 'de novo' pyrimidine nucleobase biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016627 oxidoreductase activity, acting on the CH-CH group of donors GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR005720
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0051536 iron-sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0009055 electron transfer activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004158 dihydroorotate oxidase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005720
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004152 dihydroorotate dehydrogenase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR012135
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-0004187 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003134 yeiA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003636 yeiA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003147 preA CDS
Ortholog
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0003709 preA CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0003418 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005102 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0002204 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0009192 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0002098 yeiA CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0002180 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0007124 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006574 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005472 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0078816 yeiA CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002480 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0002809 yeiA CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009765 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005764 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0002438 yeiA CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0006878 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0000506 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0006616 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0005143 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006584 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0008635 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008119 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005813 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0005903 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0009618 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007186 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0009357 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0008869 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0009235 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027124 yeiA CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0004975 preA CDS
Automated Process Approved Go view Escherichia coli HS ADR-0006955 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0002724 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002019 yeiA CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002213 yeiA CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0002629 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0002573 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002524 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0002506 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0176657 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002454 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002293 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133047 yeiA CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000249 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0002427 yeiA CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0004408 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0006502 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0002572 yeiA CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0006801 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0006970 yeiA CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0006628 yeiA CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0004201 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0006784 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006084 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0006540 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0004183 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0005932 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0006740 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0007523 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0000664 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0000664 yeiA CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0000835 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0006972 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0006422 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0006505 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0005728 CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0002698 yeiA CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0096979 yeiA CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0007089 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0004595 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005472 CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0006221 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003604 CDS
Person Approved Go view Shigella sonnei 046 ADD-0002413 yeiA 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)
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 2230265 to 2241500
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0007074dusCCDScomplement22294382230385Upstream
ABE-0007078yohJCDSforward22306242231022Upstream
ABE-0007080yohKCDSforward22310192231714Upstream
ABE-0007086cddCDSforward22318442232728Upstream
ABE-0285495repeat_regionforward22327362232769Upstream
ABE-0007091sanACDSforward22328782233597Upstream
ABE-0007093yeiSCDSforward22336002233839Upstream
ABE-0007096preTCDSforward22340332235271Overlaps Upstream
ABE-0007098preACDSforward22352652236500Matches
ABE-0285496repeat_regionforward22365342236683Downstream
ABE-0007101mglCCDScomplement22367432237753Downstream
ABE-0007103mglACDScomplement22377692239289Downstream
ABE-0007108mglBCDScomplement22393502240348Downstream
ABE-0007110galSCDScomplement22406282241668Downstream
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.