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

ABE-0014136 (nanC) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0014136 showshow history
Names
nanC JW5778 ECK4302 yjhA b4311
Product
N-acetylneuraminic acid outer membrane channel protein
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4538785 4539501 717 239
Sequence

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View sequence with flanking regions: bases upstream and bases downstream

Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR009331 (IPR009331 Oligogalacturonate-specific porin) Apr 2008
Automated Process Approved PF06178 (PF06178 Oligogalacturonate-specific porin protein (KdgM)) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
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
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Uncurated name nanC Published Annotation - PubMed ID: 15743943
Reference: Escherichia coli K-12 		Nov 2008
Person Approved synonym ECK4302 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym yjhA Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW5778 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4311 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product N-acetylneuraminic acid outer membrane channel protein Experimental - PubMed ID: 15743943
Reference: Escherichia coli K-12 		Nov 2008
Protein Family
Automated Process Approved protein family IPR009331 Oligogalacturonate-specific porin Protein Sequence Similarity - InterPro Domain: IPR009331
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF06178 Oligogalacturonate-specific porin protein (KdgM) Protein Sequence Similarity - PFAM Model Name: PF06178
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
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:EG12389 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0014136 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:87082420 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946843 Published Annotation - Entrez Gene Database ID: 946843
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P69856 Published Annotation - Swiss-Prot Accession Number: P69856 Jan 2006
Automated Process Approved db xref UniProtKB/Swiss-Prot:P69856 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77267.2 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Outer Membrane Predicted by PSORTb - PSORTb Final_Score: 9.93
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 cellular component GO:0009279 cell outer membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0003670 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003995 nanC CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004655 nanC CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0005005 nanC CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003592 nanC CDS
Ortholog
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004696 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004418 yjhA CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004406 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0005962 nanC CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007405 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081605 nanC CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004999 nanC CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005683 yjhA CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0008701 nanC CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0007382 nanC CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004922 nanC CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0009346 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003554 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0009137 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007650 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0009339 nanC CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0007648 nanC CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010645 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006630 nanC CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008457 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006815 nanC CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006010 nanC CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006153 nanC CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005625 nanC CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005284 nanC CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029480 yjhA CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005555 nanC CDS
Automated Process Approved Go view Escherichia coli HS ADR-0009224 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0005053 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003986 yjhA CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004409 yjhA CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0005079 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004848 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0005029 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0179239 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004688 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004827 nanC CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135390 yjhA CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001312 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0005016 yjhA CDS
Person Approved Go view Shigella boydii 227 ADV-0004754 yjhA CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075789 yjhA CDS
Person Approved Go view Shigella flexneri 301 ABT-0090421 yjhA CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004479 yjhA CDS
Person Approved Go view Shigella sonnei 046 ADD-0004861 yjhA 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
FB22240mutantTn5 InsertionRequest the StrainABE-0014136nanCyjhA::Tn5KAN-I-SceI at position 429 in Minus orientation ,+ pKD460Blattner Laboratory
FB22973mutantTn5 InsertionRequest the StrainABE-0014136nanCyjhA::Tn5(KAN-I-SceI) at position 429 in Minus orientation ,- pKD46 0Blattner 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 4533785 to 4544501
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0234214KpLE2prophageforward44965404536609Downstream
ABE-0285087topAICDScomplement45337964534053Downstream
ABE-0285249yjhZpseudogenecomplement45344304534675Downstream
ABE-0014128yjhRpseudogeneforward45347914536031Downstream
ABE-0285698repeat_regionforward45364054536430Downstream
ABE-0285757ythBCDSforward45365974536695Downstream
ABE-0014130nanSCDScomplement45366144537594Downstream
ABE-0014132nanMCDScomplement45376594538765Downstream
ABE-0014136nanCCDScomplement45387854539501Matches
ABE-0014141fimBCDSforward45409574541559Upstream
ABE-0014143fimECDSforward45420374542633Upstream
ABE-0014145fimACDSforward45431154543663Upstream
ABE-0014147fimICDSforward45437284544267Upstream
ABE-0014149fimCCDSforward45443044545029Upstream
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.