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

ABE-0003153 (ompF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0003153 showshow history
Names
ompF ECK0920 nfxB? JW0912 tolF cmlB coa cry b0929
Product
outer membrane porin F
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 985894 986982 1089 363
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001702 (IPR001702 Porin, Gram-negative type) Apr 2008
Automated Process Approved IPR013793 (IPR013793 Porin, Gram-negative type, conserved site) Apr 2008
Automated Process Approved IPR001897 (IPR001897 Porin, gammaproteobacterial) Apr 2008
Automated Process Approved PF00267 (PF00267 Gram-negative porin) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO biological process GO:0055085 transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001702
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0009279 cell outer membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated GO cellular component GO:0009279 cell outer membrane Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0015288 porin activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001702
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name ompF Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym coa Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved synonym cmlB Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved synonym tolF Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved synonym ECK0920 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym nfxB? Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW0912 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym cry Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved locus tag b0929 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product outer membrane porin F Published Annotation - EcoCyc Accession Number: EG10671
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Approved alternate product name outer membrane porin 1a (Ia;b;F) Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name outer membrane protein 1a (Ia;b;F) Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name outer membrane pore protein 1a (Ia;b;F) Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family PF00267 Gram-negative porin Protein Sequence Similarity - PFAM Model Name: PF00267
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001897 Porin, gammaproteobacterial Protein Sequence Similarity - InterPro Domain: IPR001897
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR001702 Porin, Gram-negative type Protein Sequence Similarity - InterPro Domain: IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR013793 Porin, Gram-negative type, conserved site Protein Sequence Similarity - InterPro Domain: IPR013793
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Uncurated MultiFun 6.1 (cell structure; membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.4 (location of gene products; outer membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.1.B.1 (transport; Channel-type Transporters; Beta barrel porins (The Outer Membrane Porin (OMP) Functional Superfamily); The General Bacterial Porin (GBP) Family) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.S.91 (transport; substrate; hydrophilic molecule) 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 GI:1787160 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:945554 Published Annotation - Entrez Gene Database ID: 945554
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0003153 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P02931 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P02931 Published Annotation - Swiss-Prot Accession Number: P02931 Jan 2005
Automated Process Approved db xref EcoGene:EG10671 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function membrane; Outer membrane constituents Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note outer membrane protein 1a (Ia;b;F); GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0009279 - cell outer membrane Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC74015.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved regulation expression regulated by dsrA; expression is increased in strain overexpressing dsrA Experimental - PubMed ID: 15342588
Reference: Escherichia coli K-12 M182 		Oct 2005
Person Uncurated regulation expression regulated by acetate; expression is reduced by acetate Experimental - PubMed ID: 11244055
Reference: Escherichia coli ATCC43888 (EHEC) 		Nov 2005
Automated Process Uncurated subcellular localization Outer Membrane Predicted by PSORTb - PSORTb Final_Score: 10.00
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
Automated Process Uncurated GO biological process GO:0055085 transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001702
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0009279 cell outer membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO cellular component GO:0009279 cell outer membrane Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001702
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0015288 porin activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001702
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-0000029 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003372 ompF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003213 ompF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0006308 ompF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003109 ompF CDS
Ortholog
Person Uncurated Go view Buchnera aphidicola APS ABZ-0129629 ompF CDS
Person Uncurated Go view Buchnera aphidicola Sg [T] ABV-0104470 ompF CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0002727 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001757 ompF CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0002262 ompF CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0006378 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0020081 ompF CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0002459 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0002022 CDS
Person Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0002194 ompF CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0004611 ompF CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0008001 ompF CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0000948 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005553 ompF CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000877 ompF CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003432 ompF CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008533 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007945 ompF CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007195 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0077163 ompF CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0000932 ompF CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001252 ompF CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0010513 ompF CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008417 ompF CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0000969 ompF CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0005473 ompF CDS
Automated Process Approved Go view Escherichia coli EC4024 (EHEC) BBI-0004455 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0009793 ompF CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008842 ompF CDS
Automated Process Approved Go view Escherichia coli EC4076 (EHEC) BAZ-0010497 ompF CDS
Automated Process Approved Go view Escherichia coli EC4113 (EHEC) BAY-0009294 ompF CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0005930 ompF CDS
Automated Process Approved Go view Escherichia coli EC4196 (EHEC) BAX-0008811 ompF CDS
Automated Process Approved Go view Escherichia coli EC4401 (EHEC) BAV-0008949 ompF CDS
Automated Process Approved Go view Escherichia coli EC4486 (EHEC) BAU-0009339 ompF CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0008522 ompF CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0007663 ompF CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0025093 ompF CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007189 ompF CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005715 ompF CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0001243 CDS
Person Approved Go view Escherichia coli K-12 DH10B AEC-0000894 ompF CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0000938 ompF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001226 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001189 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001170 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0001021 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0175160 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001013 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002190 ompF CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0130926 ompF CDS
Automated Process Approved Go view Escherichia coli TW14588 (EHEC) BBK-0005696 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0001004 ompF CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0001566 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0006307 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0000681 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0001266 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0000711 ompF CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0003494 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0001424 ompF CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0002839 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009108 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0003094 CDS
Automated Process Approved Go view Pantoea stewartii DC283 ACV-0288181 ompF CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0004521 ompf1 CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0062806 ompN CDS
Automated Process Approved Go view Pectobacterium brasiliensis 1692 AED-0001487 ompN CDS
Person Approved Go view Pectobacterium carotovorum WPP14 ADT-0003927 CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0003918 ompN CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0006615 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0140774 ompN CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0001133 ompF CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0001799 ompF CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0107241 ompF CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0083649 ompF CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0093555 ompF CDS
Person Approved Go view Shigella boydii 227 ADV-0002463 ompF CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0007801 ompF CDS
Automated Process Approved Go view Shigella dysenteriae 1012 BAA-0007169 ompF CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0002681 ompF CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0072022 ompF CDS
Person Approved Go view Shigella flexneri 301 ABT-0087278 ompF CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0000986 ompF CDS
Person Approved Go view Shigella sonnei 046 ADD-0001002 ompF CDS
Person Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0003244 CDS
Person Uncurated Go view Yersinia enterocolitica 8081 BAH-0004749 ompF CDS
Person Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0001352 ompF CDS
Person Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0000949 ompF CDS
Person Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0000652 CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0237005 ompF CDS
Person Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0002031 ompF CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0120014 ompF CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0032497 ompF CDS
Person Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0003079 ompF CDS
Person Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0002736 CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0006544 ompF CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0001507 ompF 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 980894 to 991982
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0003142ldtDCDSforward981047982894Downstream
ABE-0003145mepKCDSforward983075983623Downstream
ABE-0003147gloCCDSforward983650984297Downstream
ABE-0285413repeat_regionforward984361984458Downstream
ABE-0003150aspCCDScomplement984519985709Downstream
ABE-0003153ompFCDScomplement985894986982Matches
ABE-0003162asnSCDScomplement987585988985Upstream
ABE-0003167pncBCDScomplement989154990356Upstream
ABE-0003171pepNCDSforward990622993234Upstream
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.