Escherichia coli K-12 MG1655
About ASAP Data Release Policy University of Wisconsin—Madison
Home    Overview    Annotations    BLAST    Downloads    Comparative Genomics    Experiments    Strains    Help (this script)    User: guest  / Log On   
Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0001161 (codA) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0001161 showshow history
Names
codA JW0328 ECK0334 b0337
Product
cytosine deaminase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 356171 357454 1284 428
Sequence

Get full DNA or protein sequence

View sequence with flanking regions: bases upstream and bases downstream

Context

Browse sequence in GaPP

You last hovered over feature (none)
Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR011059 (IPR011059 Metal-dependent hydrolase, composite domain superfamily) Apr 2008
Automated Process Approved IPR013108 (IPR013108 Amidohydrolase 3) Apr 2008
Automated Process Approved IPR032466 (IPR032466 Metal-dependent hydrolase) Jul 2018
Automated Process Approved PF07969 (PF07969 Amidohydrolase family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0015949 nucleobase-containing small molecule interconversion 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
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:0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR011059
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name codA Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW0328 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK0334 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b0337 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product cytosine deaminase Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved alternate product name cytosine/isoguanine deaminase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved alternate product name cytosine deaminase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR011059 Metal-dependent hydrolase, composite domain superfamily Protein Sequence Similarity - InterPro Domain: IPR011059
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR013108 Amidohydrolase 3 Protein Sequence Similarity - InterPro Domain: IPR013108
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR032466 Metal-dependent hydrolase Protein Sequence Similarity - InterPro Domain: IPR032466
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF07969 Amidohydrolase family Protein Sequence Similarity - PFAM Model Name: PF07969
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 3.5.4.1 Published Annotation - Swiss-Prot Accession Number: P25524 Feb 2006
Automated Process Uncurated EC number 3.5.-.- Published Annotation - Database Name: EC2GO: GO:0016810
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 1.7.33 (metabolism; central intermediary metabolism; nucleotide and nucleoside conversions) 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 GeneID:944996 Published Annotation - Entrez Gene Database ID: 944996
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P25524 Published Annotation - Swiss-Prot Accession Number: P25524 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P25524 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG11326 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1786531 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0001161 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Salvage of nucleosides and nucleotides Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_component: GO:0005737 - cytoplasm; GO_process: GO:0015949 - nucleobase, nucleoside and nucleotide interconversion Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73440.1 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 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
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
Person Uncurated GO biological process GO:0015949 nucleobase-containing small molecule interconversion 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 Uncurated GO molecular function GO:0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR011059
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-0002902 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002128 codA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001940 codA CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0001872 codA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002007 codA CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0004022 codA CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0004493 CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0005279 CDS
Person Uncurated Go view Dickeya dadantii 3937 ABF-0018500 codA CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0003475 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0004275 CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0003307 codA CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007485 codA CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0000416 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000333 codA CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003969 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0009295 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007047 codA CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005766 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0076531 codA CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008058 codA CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0000315 codA CDS
Automated Process Uncurated Go view Escherichia coli E24377A (ETEC) ADO-0004811 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003906 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010582 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008164 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0009242 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0007334 codA CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0005249 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0007954 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008980 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0007871 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0009144 codA CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007586 codA CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007436 codA CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0008944 codA CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0024324 codA CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0008724 codA CDS
Automated Process Uncurated Go view Escherichia coli HS ADR-0005084 codA CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0000813 CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0000340 codA CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0000615 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0000478 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0000454 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0174550 CDS
Automated Process Uncurated Go view Escherichia coli SE11 AFS-0000371 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0000367 codA CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0130281 codA CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0004956 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0000369 codA CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003418 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0000416 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0003799 codA CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002068 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0005257 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0002804 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0000311 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0002951 codA CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0001047 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0003768 codA CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0000386 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0011408 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000445 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0288533 codA CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0006687 codA CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007692 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004490 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0003823 codA CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0007945 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0010344 CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0009791 CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007116 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0007991 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006910 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0008430 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006377 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007088 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0007954 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0005112 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003235 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0003201 codA CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004175 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008115 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0009043 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007598 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0007269 CDS
Person Uncurated Go view Salmonella Typhi CT18 ABX-0112437 codA CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0084971 codA CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0004031 CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0100349 CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005894 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0005975 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0008584 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0001256 CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0001489 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0011430 codA CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0001091 codA CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001922 codA CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0000989 CDS
Person Uncurated Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0234594 codA CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0007837 codA CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0003950 codA CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0007375 codA CDS
Person Uncurated Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0115838 codA CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0006925 codA CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0008416 codA CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0003375 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0005380 codA CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0006823 codA CDS
Person Uncurated Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0033742 codA CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0004973 codA CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0004678 codA CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0000104 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0004472 codA CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007991 codA CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0003857 codA CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0004679 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0000282 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0003920 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0001316 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 351171 to 362454
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0001148prpCCDSforward350012351181Upstream
ABE-0001152prpDCDSforward351215352666Upstream
ABE-0001154prpECDSforward352706354592Upstream
ABE-0285349repeat_regionforward354599354769Upstream
ABE-0001159codBCDSforward354922356181Overlaps Upstream
ABE-0001161codACDSforward356171357454Matches
ABE-0285350repeat_regionforward357484357562Downstream
ABE-0285351repeat_regionforward357684357762Downstream
ABE-0001165cynRCDScomplement357791358690Downstream
ABE-0001171cynTCDSforward358799359458Downstream
ABE-0001173cynSCDSforward359489359959Downstream
ABE-0001175cynXCDSforward359992361146Downstream
ABE-0285352repeat_regionforward361208361236Downstream
ABE-0001177lacACDScomplement361249361860Downstream
ABE-0285353repeat_regionforward361883361916Downstream
ABE-0001181lacYCDScomplement361926363179Downstream
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.