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

ABE-0013729 (ulaD) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013729 showshow history
Names
ulaD yjfV sgaH JW4154 ECK4192 b4196
Product
3-keto-L-gulonate 6-phosphate decarboxylase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 4422186 4422836 651 217
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR011060 (IPR011060 Ribulose-phosphate binding barrel) Apr 2008
Automated Process Approved IPR001754 (IPR001754 Orotidine 5'-phosphate decarboxylase domain) Apr 2008
Automated Process Approved IPR013785 (IPR013785 Aldolase-type TIM barrel) Apr 2008
Automated Process Approved PF00215 (PF00215 Orotidine 5'-phosphate decarboxylase / HUMPS family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
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:0006207 'de novo' pyrimidine nucleobase biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated 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 Approved GO molecular function GO:0004590 orotidine-5'-phosphate decarboxylase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name ulaD Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK4192 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym yjfV Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym sgaH Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Approved synonym JW4154 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4196 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product 3-keto-L-gulonate 6-phosphate decarboxylase Published Annotation - PubMed ID: 16397293 Jan 2006
Protein Family
Automated Process Approved protein family IPR001754 Orotidine 5'-phosphate decarboxylase domain Protein Sequence Similarity - InterPro Domain: IPR001754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00215 Orotidine 5'-phosphate decarboxylase / HUMPS family Protein Sequence Similarity - PFAM Model Name: PF00215
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011060 Ribulose-phosphate binding barrel Protein Sequence Similarity - InterPro Domain: IPR011060
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
Other
Automated Process Uncurated EC number 4.1.1.23 Published Annotation - Database Name: EC2GO: GO:0004590
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved EC number 4.1.2.- Published Annotation - Swiss-Prot Accession Number: P39304 Feb 2006
Person Uncurated MultiFun 4.4.A.2 (transport; Group Translocators; Phosphotransferase Systems (PEP-dependent PTS); The PTS Fructose-Mannitol (Fru) Family) 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:EG12496 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790640 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P39304 Published Annotation - Swiss-Prot Accession Number: P39304 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P39304 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948714 Published Annotation - Entrez Gene Database ID: 948714
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0013729 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note probable hexulose-6-phosphate synthase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77153.1 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
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
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 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: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:0006207 'de novo' pyrimidine nucleobase biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated 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 Approved GO molecular function GO:0004590 orotidine-5'-phosphate decarboxylase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001754
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-0002609 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002808 ulaD CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003037 ulaD CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0003256 yiaQ CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002823 ulaD CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0002468 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0002314 CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003713 CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0001034 ulaD CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000829 CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001069 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0008853 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004493 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006764 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004338 sgaH CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004536 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0009944 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006110 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005663 ulaD CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081498 ulaD CDS
Person Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004880 ulaD pseudogene
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005542 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009527 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0009976 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004820 ulaD CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0009193 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003261 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0009037 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007551 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007196 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010542 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006730 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008355 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006713 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0005907 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006049 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0009561 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005177 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029374 ulaD CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005771 ulaD_2 CDS
Automated Process Approved Go view Escherichia coli HS ADR-0009128 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004823 ulaD CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003879 ulaD CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004288 ulaD CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004921 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004919 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004735 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004863 ulaD CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0179030 ulaD CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004598 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004659 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135288 ulaD CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001210 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004805 sgaH CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003458 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0000459 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0004639 sgaH CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002811 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008824 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0003403 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0005028 sgaH CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0009022 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0013758 sgaH CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0013005 sgaH CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007706 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0009158 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0008746 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0004131 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0005882 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0008210 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0009092 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0006287 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0004236 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0004198 sgaH CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0005545 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0004445 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0008786 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008716 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0008818 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0114921 sgaH CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0086163 sgaH CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0005275 ulaD CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0103496 sgaH CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0004752 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0008642 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0009043 CDS
Person Approved Go view Shigella boydii 227 ADV-0004640 sgaH CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0010145 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0007440 CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004932 sgaH CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075964 sgaH CDS
Person Approved Go view Shigella flexneri 301 ABT-0090564 sgaH CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004625 sgaH CDS
Person Approved Go view Shigella sonnei 046 ADD-0004754 ulaD CDS
Person Uncurated Go view Trabulsiella guamensis ATCC 49490 [T] APH-0002117 ulaD CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0001098 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000450 CDS
Molecular Interactions to toptop
Author Approval Feature Name Technique Evidence Comment Annotated
Person Approved ABE-0013729 ulaD lambda repressor assay Doodle - bnumber: b4196 Oct 2003
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
FB22219mutantTn5 InsertionRequest the StrainABE-0013729ulaDsgaH::Tn5KAN-I-SceI at position 54 in Minus orientation ,+ pKD460Blattner Laboratory
FB22942mutantTn5 InsertionRequest the StrainABE-0013729ulaDsgaH::Tn5(KAN-I-SceI) at position 53 in Minus orientation ,- pKD46 0Blattner 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 4417186 to 4427836
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013711yjfPCDSforward44169524417701Upstream
ABE-0013713ulaRCDScomplement44176984418453Upstream
ABE-0013717ulaGCDScomplement44185614419625Upstream
ABE-0013723ulaACDSforward44199804421377Upstream
ABE-0013725ulaBCDSforward44213934421698Upstream
ABE-0013727ulaCCDSforward44217084422172Upstream
ABE-0013729ulaDCDSforward44221864422836Matches
ABE-0013732ulaECDSforward44228464423700Downstream
ABE-0013734ulaFCDSforward44237004424386Downstream
ABE-0013736yjfYCDScomplement44245164424791Downstream
ABE-0013740rpsFCDSforward44251184425513Downstream
ABE-0013742priBCDSforward44255204425834Downstream
ABE-0013744rpsRCDSforward44258394426066Downstream
ABE-0013746rplICDSforward44261084426557Downstream
ABE-0013748yjfZCDScomplement44266284427422Downstream
ABE-0013754ytfApseudogeneforward44276934428095Downstream
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.