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

ABE-0000895 (mmuM) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0000895 showshow history
Names
mmuM JW0253 ECK0263 yagD b0261
Product
CP4-6 prophage; S-methylmethionine:homocysteine methyltransferase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 276715 277647 933 311
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR003726 (IPR003726 Homocysteine-binding domain) Apr 2008
Automated Process Approved IPR036589 (IPR036589 Homocysteine-binding domain superfamily) Jul 2018
Automated Process Approved PF02574 (PF02574 Homocysteine S-methyltransferase) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0006071 glycerol metabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO biological process GO:0009086 methionine biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO molecular function GO:0008898 S-adenosylmethionine-homocysteine S-methyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003726
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name mmuM Published Annotation - Swiss-Prot Accession Number: Q47690 Aug 2002
Person Approved synonym yagD Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW0253 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK0263 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b0261 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product CP4-6 prophage; S-methylmethionine:homocysteine methyltransferase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name S-methylmethionine:homocysteine methyltransferase Published Annotation - Swiss-Prot Accession Number: Q47690 Jan 2006
Person Uncurated alternate product name CP4-6 prophage; S-methylmethionine:homocysteine methyltransferase Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR036589 Homocysteine-binding domain superfamily Protein Sequence Similarity - InterPro Domain: IPR036589
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF02574 Homocysteine S-methyltransferase Protein Sequence Similarity - PFAM Model Name: PF02574
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR003726 Homocysteine-binding domain Protein Sequence Similarity - InterPro Domain: IPR003726
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 2.1.1.10 Published Annotation - Swiss-Prot Accession Number: Q47690 Feb 2006
Person Uncurated MultiFun 8.1 (extrachromosomal; prophage genes and phage related functions) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.7.6 (metabolism; central intermediary metabolism; glycerol metabolism) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.5.1.9 (metabolism; building block biosynthesis; amino acids; methionine) 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 Approved db xref UniProtKB:Q47690 Published Annotation - Swiss-Prot Accession Number: Q47690 Jan 2006
Automated Process Approved db xref GeneID:946143 Published Annotation - Entrez Gene Database ID: 946143
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0000895 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG13343 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1786456 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function Phage or Prophage Related Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note GO_process: GO:0006071 - glycerol metabolic process; GO_process: GO:0009086 - methionine biosynthetic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73364.1 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
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:0009086 methionine biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO biological process GO:0006071 glycerol metabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO molecular function GO:0008898 S-adenosylmethionine-homocysteine S-methyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003726
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-0002393 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0005707 mmuM CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004431 mmuM CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002401 mmuM CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0005568 mmuM CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0002650 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0001330 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000289 mmuM CDS
Person Uncurated Go view Escherichia coli K-12 W3110 ADY-0000264 mmuM CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0003322 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0002284 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0003272 mmuM CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0002300 mmuM CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0001700 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0003066 mmuM CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0001088 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0010756 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000880 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0291353 mmuM CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0006112 mmuM CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0004120 mmuM CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0004427 mmuM CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0006316 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0002229 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
FB20106mutantTn5 InsertionRequest the StrainABE-0000895mmuMyagD::Tn5KAN-I-SceI at position 739 in Minus orientation ,+ pKD460Blattner Laboratory
FB20107mutantTn5 InsertionRequest the StrainABE-0000895mmuMyagD::Tn5KAN-I-SceI at position 739 in Minus orientation ,- pKD465Blattner 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 271715 to 282647
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0234205CP4-6prophageforward262958297265Contains
ABE-0285342misc_featureforward262958297265Contains
ABE-0000869mobile_elementforward270541271761Upstream
ABE-0000871insI-1CDSforward270603271754Upstream
ABE-0000873mobile_elementforward271762272190Upstream
ABE-0285253insNpseudogeneforward271764272190(Interval #2) Upstream
ABE-0000880insO-1CDSpforward271830272255Upstream
ABE-0285230eyeAncRNAforward272580272654Upstream
ABE-0000885ykfCpseudogeneforward272847273954Upstream
ABE-0000886is_elementforward273955275149Upstream
ABE-0285343mobile_elementcomplement273955275149Upstream
ABE-0000888insH1CDScomplement274101275081Upstream
ABE-0000893mmuPCDSforward275325276728Overlaps Upstream
ABE-0000895mmuMCDSforward276715277647Matches
ABE-0285344repeat_regionforward277675277741Downstream
ABE-0000898afuCCDScomplement277756278802Downstream
ABE-0000900afuBpseudogenecomplement278814279162Downstream
ABE-0000902mobile_elementcomplement279163279930Downstream
ABE-0000906insB-2CDScomplement279178279681Downstream
ABE-0000909insA-2CDScomplement279600279875Downstream
ABE-0000910mobile_elementforward279931280111Downstream
ABE-0285317insI1pseudogeneforward279931280104Downstream
ABE-0285026insXpseudogenecomplement280112280362Downstream
ABE-0285345mobile_elementcomplement280114280425Downstream
ABE-0000912yagBpseudogenecomplement280427280735Downstream
ABE-0000915yagACDScomplement280829281983Downstream
ABE-0000921yagECDSforward282278283186Downstream
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.