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

ABE-0010245 (tdcD) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0010245 showshow history
Names
tdcD yhaA JW5806 ECK3104 b3115
Product
propionate kinase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 3262452 3263660 1209 403
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000890 (IPR000890 Aliphatic acid kinase, short-chain) Apr 2008
Automated Process Approved IPR004372 (IPR004372 Acetate/propionate kinase) Apr 2008
Automated Process Approved IPR024917 (IPR024917 Propionate kinase) Jul 2018
Automated Process Approved PF00871 (PF00871 Acetokinase family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Approved GO biological process GO:0009063 cellular amino acid catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0016310 phosphorylation GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006082 organic acid metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004372
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005622 intracellular anatomical structure GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
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:0016774 phosphotransferase activity, carboxyl group as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016301 kinase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name tdcD Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved synonym yhaA Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW5806 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK3104 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3115 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product propionate kinase Published Annotation - EcoCyc Accession Number: EG11172
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Approved alternate product name propionate kinase/acetate kinase II, anaerobic Experimental - PubMed ID: 9484901
Reference: Escherichia coli 		Jan 2006
Person Approved alternate product name propionate kinase/acetate kinase C, anaerobic Published Annotation - PubMed ID: 16397293 Jan 2006
Protein Family
Automated Process Approved protein family IPR024917 Propionate kinase Protein Sequence Similarity - InterPro Domain: IPR024917
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR000890 Aliphatic acid kinase, short-chain Protein Sequence Similarity - InterPro Domain: IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR004372 Acetate/propionate kinase Protein Sequence Similarity - InterPro Domain: IPR004372
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00871 Acetokinase family Protein Sequence Similarity - PFAM Model Name: PF00871
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 2.7.2.15 Published Annotation - Swiss-Prot Accession Number: P11868 Feb 2006
Person Approved MultiFun 1.7.30 (metabolism; central intermediary metabolism; threonine catabolism) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Approved MultiFun 1.1.3 (metabolism; carbon utilization; amino acids) 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
Person Uncurated comment The coordinates of tdcD have been changed from those reported in the GenBank entry (GBAN:U00096.2) to correspond to the start site predicted in EcoGene (EG11172) and by GeneMark.hmm using multiple models, removing 4 codons from the N-terminus. Published Annotation in EcoGene - EG Number: EG11172
Reference: Escherichia coli K-12 MG1655 		Apr 2007
Automated Process Approved db xref GI:145693184 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG11172 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:947635 Published Annotation - Entrez Gene Database ID: 947635
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P11868 Published Annotation - Swiss-Prot Accession Number: P11868 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P11868 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0010245 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function 1.7.30 metabolism; central intermediary metabolism; threonine catabolism Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function 1.1.3 metabolism; carbon utilization; amino acids 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
Person Approved molecular interaction Interacts with the product of lysS ASAP:9486:(interacting residues not known); by MALDI-TOF Experimental - PubMed ID: 15690043
Reference: Escherichia coli K-12 W3110 		Mar 2005
Automated Process Approved note propionate kinase/acetate kinase II, anaerobic; GO_process: GO:0009063 - cellular amino acid catabolic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC76150.2 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: 9.97
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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
Person Uncurated subsystem component of in silico model iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 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:0006082 organic acid metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004372
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0016310 phosphorylation GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO biological process GO:0009063 cellular amino acid catabolic process 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 cellular component GO:0005622 intracellular anatomical structure GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016774 phosphotransferase activity, carboxyl group as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016301 kinase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000890
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-0005148 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002645 tdcD CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002896 tdcD CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002621 tdcD CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0003617 tdcD CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0000324 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0000634 tdcD CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0004744 tdcD CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0004502 CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0002321 tdcD CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0008046 tdcD CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003238 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0007993 ackA CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003189 tdcD CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001069 tdcD CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006014 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007275 tdcD CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007041 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0080045 tdcD CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003582 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004207 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0005534 tdcD CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005659 tdcD CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0003628 tdcD CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008023 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0002791 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007768 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006285 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007816 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0007415 tdcD CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009264 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005901 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0007070 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006051 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0008954 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007648 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005456 tdcD CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006302 tdcD CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028140 tdcD CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007275 tdcD CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007987 tdcD CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0003637 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002907 tdcD CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003184 tdcD CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003762 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0003684 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003414 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0003586 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0177748 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003462 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003409 tdcD CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0134053 tdcD CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0005959 CDS
Person Approved Go view Escherichia coli UTI89 (UPEC) AEA-0003559 tdcD CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0002299 tdcD CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0001844 tdcD CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0002491 CDS
Person Approved Go view Pseudomonas syringae pv. tomato DC3000 ADG-0001699 tdcD CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007597 ackA CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004590 CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0003726 tdcD CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0007851 ackA CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0010052 tdcD CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0009510 tdcD CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007214 ackA CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0007896 ackA CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006816 ackA CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0005815 ackA CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006279 ackA CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0006991 ackA CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0007861 ackA CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0005211 ackA CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003144 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0003110 tdcD CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004061 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008016 ackA CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007318 ackA CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007504 ackA CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0007176 ackA CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112225 tdcD CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0084881 tdcD CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0003930 tdcD CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0100073 tdcD CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005986 ackA CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0006067 ackA CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0004623 ackA CDS
Person Approved Go view Shigella boydii 227 ADV-0003270 tdcD CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008656 tdcD CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0006387 ackA CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0003767 tdcD CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074561 tdcD CDS
Person Approved Go view Shigella flexneri 301 ABT-0089396 tdcD CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003361 tdcD CDS
Person Approved Go view Shigella sonnei 046 ADD-0003575 tdcD CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0001063 tdcD CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0002055 tdcD CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0006680 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0002709 tdcD 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 3257452 to 3268660
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0010228cyuPCDScomplement32566793258010Downstream
ABE-0174101tdcGCDScomplement32582853259649Downstream
ABE-0010240tdcFCDScomplement32597213260110Downstream
ABE-0010242tdcECDScomplement32601243262418Downstream
ABE-0010245tdcDCDScomplement32624523263660Matches
ABE-0010247tdcCCDScomplement32636863265017Upstream
ABE-0010249tdcBCDScomplement32650393266028Upstream
ABE-0010252tdcACDScomplement32661273267065Upstream
ABE-0010255tdcRCDSforward32673803267598Upstream
ABE-0010261yhaBCDSforward32678543268393Upstream
ABE-0010263yhaCCDSforward32684153269602Upstream
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.