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

ABE-0013344 (nrfB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013344 showshow history
Names
nrfB yjcI JW4032 ECK4064 b4071
Product
periplasmic nitrite reductase penta-heme c-type cytochrome
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 4289245 4289811 567 189
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 IPR011031 (IPR011031 Multihaem cytochrome) Apr 2008
Automated Process Approved IPR023155 (IPR023155 Cytochrome c-552/4) Jul 2018
Automated Process Approved IPR010177 (IPR010177 Doubled CXXCH motif) Jul 2018
Automated Process Approved IPR017564 (IPR017564 Cytochrome c nitrite reductase, pentahaem subunit) Jul 2018
Automated Process Approved IPR036280 (IPR036280 Multiheme cytochrome superfamily) Jul 2018
Automated Process Approved PF13435 (PF13435 Cytochrome c554 and c-prime) Jul 2018
Automated Process Approved PF09699 (PF09699 Doubled CXXCH motif (Paired_CXXCH_1)) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO biological process GO:0006807 nitrogen compound metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR017564
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0017004 cytochrome complex assembly Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Approved GO cellular component GO:0042597 periplasmic space Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0020037 heme binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR017564
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO molecular function GO:0009054 (DEPRECATED) electron acceptor activity Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name nrfB Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK4064 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym yjcI Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW4032 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4071 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product periplasmic nitrite reductase penta-heme c-type cytochrome Published Annotation - EcoCyc Accession Number: EG11945
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Approved alternate product name formate-dependent nitrite reductase; a penta-haeme cytochrome c Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name nitrite reductase, formate-dependent; a penta-haeme cytochrome c Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name nitrite reductase, formate-dependent, penta-heme cytochrome c Published Annotation - PubMed ID: 16397293 Jan 2006
Protein Family
Automated Process Approved protein family IPR017564 Cytochrome c nitrite reductase, pentahaem subunit Protein Sequence Similarity - InterPro Domain: IPR017564
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011031 Multihaem cytochrome Protein Sequence Similarity - InterPro Domain: IPR011031
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR023155 Cytochrome c-552/4 Protein Sequence Similarity - InterPro Domain: IPR023155
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR010177 Doubled CXXCH motif Protein Sequence Similarity - InterPro Domain: IPR010177
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF13435 Cytochrome c554 and c-prime Protein Sequence Similarity - PFAM Model Name: PF13435
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR036280 Multiheme cytochrome superfamily Protein Sequence Similarity - InterPro Domain: IPR036280
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF09699 Doubled CXXCH motif (Paired_CXXCH_1) Protein Sequence Similarity - PFAM Model Name: PF09699
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Approved EC number 1.7.2.2 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated MultiFun 1.4.2 (metabolism; energy production/transport; electron acceptor) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.3.7 (metabolism; energy metabolism, carbon; anaerobic respiration) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.2 (location of gene products; periplasmic space) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.6.15.1 (metabolism; macromolecules (cellular constituent) biosynthesis; large molecule carriers; cytochromes) 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:948573 Published Annotation - Entrez Gene Database ID: 948573
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P0ABL1 Published Annotation - Swiss-Prot Accession Number: P0ABL1 Jan 2006
Automated Process Approved db xref GI:87082366 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P0ABL1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0013344 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG11945 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Energy metabolism, carbon: Anaerobic respiration Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note formate-dependent nitrite reductase; a penta-haeme cytochrome c; GO_component: GO:0042597 - periplasmic space; GO_process: GO:0009061 - anaerobic respiration; GO_process: GO:0017004 - cytochrome complex assembly Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77041.2 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: 2.50
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:0017004 cytochrome complex assembly Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO biological process GO:0006807 nitrogen compound metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR017564
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Approved GO cellular component GO:0042597 periplasmic space Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0020037 heme binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR017564
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO molecular function GO:0009054 (DEPRECATED) electron acceptor activity Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Comparative to toptop
Author Approval Details Genome Feature Name Type
Homolog
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0265348 mtrD CDS
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0003428 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002987 nrfB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003088 nrfB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0008535 nrfB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002851 nrfB CDS
Ortholog
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004142 nrfB CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000186 nrfB CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001959 nrfB CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006352 nrfB CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004355 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006899 nrfB CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004148 nrfB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004741 nrfB CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010118 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006280 nrfB CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009223 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081275 nrfB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004737 nrfB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005339 nrfB CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006161 nrfB CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006617 nrfB CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004691 nrfB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0009064 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003128 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008904 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007417 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007062 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0006262 nrfB CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010406 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0007078 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008222 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0007192 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0005774 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006521 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006012 nrfB CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005043 nrfB CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029245 nrfB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007038 nrfB CDS
Automated Process Approved Go view Escherichia coli HS ADR-0009004 nrfB CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004674 CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004158 nrfB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004783 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004786 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004600 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004719 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178887 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004466 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004525 nrfB CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135165 nrfB CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0003319 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004670 nrfB CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0062135 nrfB CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0001033 nrfB CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0002810 nrfB CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0002112 nrfB CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0007406 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008699 nrfB CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0003558 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0004891 nrfB CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008911 nrfB CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0013397 nrfB CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0012660 nrfB CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007820 nrfB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008976 nrfB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0007381 nrfB CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0004015 nrfB CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0005757 nrfB CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0008084 nrfB CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008968 nrfB CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0008273 nrfB CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0004131 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0004090 nrfB CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0005298 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0004319 nrfB CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007468 nrfB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008593 nrfB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0006282 nrfB CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0114488 nrfB CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0085911 nrfB CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0005150 nrfB CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0103172 nrfB CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0004867 nrfB CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0007536 nrfB CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005798 nrfB CDS
Person Approved Go view Shigella boydii 227 ADV-0004466 nrfB CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0010011 nrfB CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004635 nrfB CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074809 nrfB CDS
Person Approved Go view Shigella flexneri 301 ABT-0090344 nrfB CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004397 nrfB CDS
Person Approved Go view Shigella sonnei 046 ADD-0004619 nrfB CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0003309 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0003582 nrfB CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0002716 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
FB21641mutantTn5 InsertionRequest the StrainABE-0013344nrfBnrfB::Tn5KAN-I-SceI at position 242 in Plus orientation ,+ pKD460Blattner Laboratory
FB21642mutantTn5 InsertionRequest the StrainABE-0013344nrfBnrfB::Tn5KAN-I-SceI at position 242 in Plus 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 4284245 to 4294811
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013328actPCDScomplement42832534284902Upstream
ABE-0013330yjcHCDScomplement42848994285213Upstream
ABE-0285673repeat_regionforward42853024285378Upstream
ABE-0013337acsCDScomplement42854134287371Upstream
ABE-0285850ytcBCDSforward42876114287667Upstream
ABE-0013342nrfACDSforward42877644289200Upstream
ABE-0013344nrfBCDSforward42892454289811Matches
ABE-0013346nrfCCDSforward42898084290479Overlaps Downstream
ABE-0013348nrfDCDSforward42904764291432Downstream
ABE-0013350nrfECDSforward42915124293170Downstream
ABE-0013352nrfFCDSforward42931634293546Downstream
ABE-0013354nrfGCDSforward42935434294139Downstream
ABE-0013357gltPCDSforward42944814295794Downstream
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.