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

ABE-0001138 (prpB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0001138 showshow history
Names
prpB yahQ JW0323 ECK0329 b0331
Product
2-methylisocitrate lyase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 348682 349572 891 297
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000918 (IPR000918 (DEPRECATED) Isocitrate lyase/phosphorylmutase) Apr 2008
Automated Process Approved IPR015809 (IPR015809 (DEPRECATED) Isocitrate lyase and phosphorylmutase, core) Apr 2008
Automated Process Approved IPR012695 (IPR012695 2-methylisocitrate lyase) Apr 2008
Automated Process Approved IPR015813 (IPR015813 Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily) Jul 2018
Automated Process Approved PF13714 (PF13714 Phosphoenolpyruvate phosphomutase) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0019395 fatty acid oxidation Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO biological process GO:0019629 propionate catabolic process, 2-methylcitrate cycle GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR012695
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:IPR000918
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
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:0046421 methylisocitrate lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR012695
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000918
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name prpB Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW0323 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym yahQ Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym ECK0329 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b0331 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product 2-methylisocitrate lyase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name putative phosphonomutase 2 Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name putative carboxyphosphonoenolpyruvate mutase Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR015809 (DEPRECATED) Isocitrate lyase and phosphorylmutase, core Protein Sequence Similarity - InterPro Domain: IPR015809
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF13714 Phosphoenolpyruvate phosphomutase Protein Sequence Similarity - PFAM Model Name: PF13714
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR000918 (DEPRECATED) Isocitrate lyase/phosphorylmutase Protein Sequence Similarity - InterPro Domain: IPR000918
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR015813 Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily Protein Sequence Similarity - InterPro Domain: IPR015813
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR012695 2-methylisocitrate lyase Protein Sequence Similarity - InterPro Domain: IPR012695
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 4.1.3.30 Published Annotation - Swiss-Prot Accession Number: P77541 Feb 2006
Person Uncurated MultiFun 1.1.2 (metabolism; carbon utilization; fatty acids) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.1 (location of gene products; cytoplasm) 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:EG13601 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P77541 Published Annotation - Swiss-Prot Accession Number: P77541 Jan 2005
Automated Process Approved db xref GeneID:944990 Published Annotation - Entrez Gene Database ID: 944990
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref UniProtKB/Swiss-Prot:P77541 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1786525 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0001138 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 phosphonomutase 2; GO_component: GO:0005737 - cytoplasm; GO_process: GO:0019395 - fatty acid oxidation Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73434.1 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 iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 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 Uncurated GO biological process GO:0019629 propionate catabolic process, 2-methylcitrate cycle GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR012695
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:IPR000918
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0019395 fatty acid oxidation 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: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:IPR000918
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0046421 methylisocitrate lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR012695
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0006623 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003271 prpB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003481 prpB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004287 prpB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003050 prpB CDS
Ortholog
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001103 prpB CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0001615 prpB CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0000557 prpB CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007479 prpB CDS
Automated Process Uncurated Go view Escherichia coli 536 (UPEC) AEF-0000411 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000328 prpB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003974 prpB CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0009300 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007052 prpB CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005771 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0076526 prpB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0000392 prpB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0000481 prpB CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007042 prpB CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008065 prpB CDS
Automated Process Uncurated Go view Escherichia coli E2348/69 (EPEC) BCI-0000310 prpB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0004806 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003898 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010575 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008158 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0009235 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0007329 prpB CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0005242 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0007960 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008973 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0007864 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0009137 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007579 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007442 prpB CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0008937 prpB CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0024317 prpB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0008729 prpB CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005079 prpB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0000335 prpB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0000488 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0000572 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0000483 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0174544 prpB CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0000365 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0000362 prpB CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0130276 prpB CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0004950 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0000364 prpB CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0144901 prpB CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0002331 prpB CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0004580 prpB CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0002689 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0000479 prpB CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0004678 prpB CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0001191 prpB CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0001170 prpB CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0005773 prpB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0004828 prpB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0004184 prpB CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0004689 prpB CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006729 prpB CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0008848 prpB CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0004778 prpB CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0006916 prpB CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0002373 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0002355 prpB CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0003243 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0005068 prpB CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007045 prpB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0004510 prpB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0006727 prpB CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0106072 prpB CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0084211 prpB CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0000432 prpB CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0091700 prpB CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0009133 prpB CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0005470 prpB CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0006451 prpB CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0004346 prpB CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0263896 prpB CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0001408 VC1336 CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0002150 prpB 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
FB22998mutantTn5 InsertionRequest the StrainABE-0001138prpBprpB::Tn5KAN-I-SceI at position 45 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 343682 to 354572
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0001113yahKCDSforward342884343933Upstream
ABE-0001117yahLCDSforward344176344991Upstream
ABE-0001120yahMCDSforward345404345649Upstream
ABE-0001122yahNCDScomplement345666346337Upstream
ABE-0001130yahOCDSforward346484346759Upstream
ABE-0285347repeat_regionforward346824346853Upstream
ABE-0001133prpRCDScomplement346857348443Upstream
ABE-0001138prpBCDSforward348682349572Matches
ABE-0285348repeat_regionforward349605349969Downstream
ABE-0001148prpCCDSforward350012351181Downstream
ABE-0001152prpDCDSforward351215352666Downstream
ABE-0001154prpECDSforward352706354592Downstream
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.