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

ABE-0008994 (ygbL) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008994 showshow history
Names
ygbL JW2708 ECK2733 b2738
Product
putative 3-oxo-tetronate 4-phosphate decarboxylase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2863593 2864231 639 213
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001303 (IPR001303 Class II aldolase/adducin N-terminal) Apr 2008
Automated Process Approved IPR036409 (IPR036409 Class II aldolase/adducin N-terminal domain superfamily) Jul 2018
Automated Process Approved PF00596 (PF00596 Class II Aldolase and Adducin N-terminal domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO molecular function GO:0046872 metal ion binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001303
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name ygbL Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK2733 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2708 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2738 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product putative 3-oxo-tetronate 4-phosphate decarboxylase Protein Sequence Similarity - ASAP FeatureID: ABL-0064667
Reference: Pectobacterium atrosepticum SCRI1043 		May 2020
Person Uncurated alternate product name predicted class II aldolase Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		May 2020
Person Uncurated alternate product name putative fuculose phosphate aldolase Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name putative epimerase/aldolase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR036409 Class II aldolase/adducin N-terminal domain superfamily Protein Sequence Similarity - InterPro Domain: IPR036409
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00596 Class II Aldolase and Adducin N-terminal domain Protein Sequence Similarity - PFAM Model Name: PF00596
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001303 Class II aldolase/adducin N-terminal Protein Sequence Similarity - InterPro Domain: IPR001303
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
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 ASAP:ABE-0008994 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:Q46890 Published Annotation - Swiss-Prot Accession Number: Q46890 Jan 2006
Automated Process Approved db xref GeneID:947197 Published Annotation - Entrez Gene Database ID: 947197
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1789094 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG13106 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function putative enzyme; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note putative epimerase/aldolase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75780.1 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
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
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 molecular function GO:0046872 metal ion binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001303
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-0002604 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002571 ygbL CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002731 ygbL CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0003549 ygbL CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003093 ygbL CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0000580 CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000125 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0299557 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0001235 ygbL CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0002447 fucA CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0002811 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0008248 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0002745 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008424 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0002738 ygbL CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001553 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006481 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007443 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0006997 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0079455 ygbL CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003126 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003634 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0008141 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008843 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0003197 ygbL CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007471 CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0006191 fucA_1 CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007551 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0003174 CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002807 ygbL CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003554 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0003221 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003122 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0003055 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0177304 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003043 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0003113 ygbL CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001607 ygbL CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0001831 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0001947 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0001787 ygbL CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0002251 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0002527 ygbL CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0001619 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0001350 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0289478 ygbL CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0005701 ygbL CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0064667 otnC CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0002588 CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0001181 vguC CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0000715 CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0004567 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0142594 CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0005140 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007204 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0003331 ygbL CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0007481 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0008993 ygbL CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0008534 ygbL CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0006484 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0007464 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006424 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0005459 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0005481 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0006589 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0007480 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0005579 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0002801 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0002772 ygbL CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0003643 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0007643 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0005579 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007138 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0005347 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0111550 CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0084534 CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0003523 ygbL CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0099107 ygbL CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0006378 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0006724 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0007320 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0004313 CDS
Person Approved Go view Shigella boydii 227 ADV-0003062 ygbL CDS
Automated Process Uncurated Go view Shigella boydii BS512 ADJ-0008548 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003844 CDS
Person Approved Go view Shigella sonnei 046 ADD-0003156 ygbL CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0007177 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0000055 fucA_2 CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0000330 fucA_2 CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003002 CDS
Person Uncurated Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0236308 araD2 CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0001162 CDS
Person Uncurated Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0119358 CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0006093 CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0003254 CDS
Person Uncurated Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0032694 CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0005399 CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0003291 CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0002948 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0006450 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0006734 CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0001342 pseudogene
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0001617 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0003350 CDS
Molecular Interactions to toptop
Author Approval Feature Name Technique Evidence Comment Annotated
Person Approved ABE-0008994 ygbL lambda repressor assay Doodle - bnumber: b2738 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
FB22658mutantTn5 InsertionRequest the StrainABE-0008994ygbLygbL::Tn5KAN-I-SceI at position 157 in Minus orientation ,+ pKD460Blattner Laboratory
FB23197mutantTn5 InsertionRequest the StrainABE-0008994ygbLygbL::Tn5KAN-I-SceI at position 157 in Minus orientation ,- pKD465Tim Durfee (durf@genome.wisc.edu)
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 2858593 to 2869231
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008977mutSCDSforward28570932859654Upstream
ABE-0008980pphBCDSforward28597602860416Upstream
ABE-0008982ygbICDScomplement28604672861234Upstream
ABE-0008986ygbJCDSforward28614302862338Upstream
ABE-0008988ygbKCDSforward28623352863501Upstream
ABE-0008994ygbLCDSforward28635932864231Matches
ABE-0008996ygbMCDSforward28642362865012Downstream
ABE-0008999ygbNCDSforward28651012866465Downstream
ABE-0285543repeat_regionforward28664792866496Downstream
ABE-0009001rpoSCDScomplement28665592867551Downstream
ABE-0009004nlpDCDScomplement28676142868753Downstream
ABE-0009006pcmCDScomplement28688932869519Downstream
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.