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

ABE-0009581 (scpB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0009581 showshow history
Names
scpB mmcD JW2886 ECK2915 ygfG b2919
Product
methylmalonyl-CoA decarboxylase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 3063993 3064778 786 262
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001753 (IPR001753 Enoyl-CoA hydratase/isomerase) Apr 2008
Automated Process Approved IPR029045 (IPR029045 ClpP/crotonase-like domain superfamily) Jul 2018
Automated Process Approved PF00378 (PF00378 Enoyl-CoA hydratase/isomerase) 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:IPR001753
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:IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Uncurated name scpB Published Annotation in EcoGene - EG Number: EG12972
Reference: Escherichia coli K-12 MG1655 		Sep 2007
Person Approved synonym ECK2915 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2886 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ygfG Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved synonym mmcD Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved locus tag b2919 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product methylmalonyl-CoA decarboxylase Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Oct 2021
Person Uncurated alternate product name methylmalonyl-CoA decarboxylase, biotin-independent Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name putative enzyme Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR001753 Enoyl-CoA hydratase/isomerase Protein Sequence Similarity - InterPro Domain: IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR029045 ClpP/crotonase-like domain superfamily Protein Sequence Similarity - InterPro Domain: IPR029045
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00378 Enoyl-CoA hydratase/isomerase Protein Sequence Similarity - PFAM Model Name: PF00378
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 4.1.1.41 Published Annotation - Swiss-Prot Accession Number: P52045 Feb 2006
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 EcoGene:EG12972 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0009581 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P52045 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:947408 Published Annotation - Entrez Gene Database ID: 947408
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:87082183 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P52045 Published Annotation - Swiss-Prot Accession Number: P52045 Jan 2005
Automated Process Approved function enzyme; Not classified Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note putative enzyme Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75956.2 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: 8.96
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:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001753
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:IPR001753
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 (205 gammaproteobacteria) APP-0003886 scpB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004283 scpB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003818 scpB CDS
Ortholog
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001584 scpB CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0004518 scpB CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0002647 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005922 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008222 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006269 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0005724 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0008573 CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003348 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003860 ygfG CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0005758 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0007222 CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007682 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0004290 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007552 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006071 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0008328 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005769 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009051 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006115 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0006854 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005835 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006347 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005660 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005241 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027930 ygfG CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007758 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002732 ygfG CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002991 ygfG CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003352 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0003493 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003222 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003242 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003053 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133832 CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001086 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004811 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0265474 CDS
Person Approved Go view Shigella boydii 227 ADV-0003369 ygfG CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008755 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003917 CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074283 ygfG CDS
Person Approved Go view Shigella flexneri 301 ABT-0089155 ygfG CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003162 ygfG CDS
Person Approved Go view Shigella sonnei 046 ADD-0003353 ygfG CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0005579 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0000848 scpB CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0000171 scpB CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0001669 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0007522 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0002405 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 3058993 to 3069778
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0009567rpiACDScomplement30586663059325Upstream
ABE-0009570yqfEpseudogenecomplement30593813059573Upstream
ABE-0009574argPCDSforward30597533060646Upstream
ABE-0285558repeat_regionforward30606603060680Upstream
ABE-0009577scpACDSforward30608503062994Upstream
ABE-0009579argKCDSforward30629873063982Upstream
ABE-0009581scpBCDSforward30639933064778Matches
ABE-0009583scpCCDSforward30648023066280Downstream
ABE-0009585ygfICDScomplement30662773067173Downstream
ABE-0009588yggECDScomplement30673403068080Downstream
ABE-0009591argOCDScomplement30681733068808Downstream
ABE-0009595mscSCDScomplement30689473069807Downstream
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.