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

ABE-0008198 (hyfI) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008198 showshow history
Names
hyfI JW5805 ECK2485 b2489
Product
hydrogenase 4 catalytic subunit
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2610706 2611464 759 253
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR006138 (IPR006138 NADH-ubiquinone oxidoreductase, 20 Kd subunit) Apr 2008
Automated Process Approved IPR014406 (IPR014406 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, small subunit/NADH:quinone oxidoreductase, subunit NuoB) Apr 2008
Automated Process Approved IPR014658 (IPR014658 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, small subunit) Apr 2008
Automated Process Approved IPR006137 (IPR006137 NADH:ubiquinone oxidoreductase-like, 20kDa subunit) Apr 2008
Automated Process Approved PF01058 (PF01058 NADH ubiquinone oxidoreductase, 20 Kd subunit) 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:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0051536 iron-sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0051540 metal cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014658
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016651 oxidoreductase activity, acting on NAD(P)H GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0051539 4 iron, 4 sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name hyfI Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW5805 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK2485 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2489 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product hydrogenase 4 catalytic subunit Published Annotation - EcoCyc Accession Number: G7306
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Uncurated alternate product name hydrogenase 4, Fe-S subunit Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name hydrogenase 4 Fe-S subunit Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR014658 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, small subunit Protein Sequence Similarity - InterPro Domain: IPR014658
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR006137 NADH:ubiquinone oxidoreductase-like, 20kDa subunit Protein Sequence Similarity - InterPro Domain: IPR006137
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR014406 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, small subunit/NADH:quinone oxidoreductase, subunit NuoB Protein Sequence Similarity - InterPro Domain: IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF01058 NADH ubiquinone oxidoreductase, 20 Kd subunit Protein Sequence Similarity - PFAM Model Name: PF01058
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR006138 NADH-ubiquinone oxidoreductase, 20 Kd subunit Protein Sequence Similarity - InterPro Domain: IPR006138
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 1.-.-.- Published Annotation - Swiss-Prot Accession Number: P77668 Feb 2006
Person Uncurated MultiFun 1.3.7 (metabolism; energy metabolism, carbon; anaerobic respiration) 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:EG14217 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0008198 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1788834 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P77668 Published Annotation - Swiss-Prot Accession Number: P77668 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P77668 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946966 Published Annotation - Entrez Gene Database ID: 946966
Reference: Escherichia coli K-12 MG1655 		Jun 2009
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 hydrogenase 4 Fe-S subunit; GO_process: GO:0009061 - anaerobic respiration Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75542.1 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:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016651 oxidoreductase activity, acting on NAD(P)H GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0051539 4 iron, 4 sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014406
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0051536 iron-sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0051540 metal cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014658
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-0002657 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0004125 hyfI CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001823 hyfI CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004149 hyfI CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0004123 hyfI CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0003719 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0004248 CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0007630 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0015744 hyfI CDS
Automated Process Approved Go view Escherichia coli 101-1 (EAEC) BAB-0006774 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006734 CDS
Automated Process Approved Go view Escherichia coli B7A (ETEC) ADK-0009756 CDS
Person Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002838 hyfI pseudogene
Automated Process Approved Go view Escherichia coli E110019 (EPEC) ADM-0006747 CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007205 CDS
Automated Process Approved Go view Escherichia coli EC4024 (EHEC) BBI-0000829 CDS
Automated Process Approved Go view Escherichia coli EC4042 (EHEC) BBA-0007054 CDS
Automated Process Approved Go view Escherichia coli EC4045 (EHEC) BBB-0005575 CDS
Automated Process Approved Go view Escherichia coli EC4076 (EHEC) BAZ-0005049 CDS
Automated Process Approved Go view Escherichia coli EC4113 (EHEC) BAY-0006617 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008551 CDS
Automated Process Approved Go view Escherichia coli EC4196 (EHEC) BAX-0006266 CDS
Automated Process Approved Go view Escherichia coli EC4206 (EHEC) BAW-0006343 CDS
Automated Process Approved Go view Escherichia coli EC4401 (EHEC) BAV-0008202 CDS
Automated Process Approved Go view Escherichia coli EC4486 (EHEC) BAU-0008000 CDS
Automated Process Approved Go view Escherichia coli EC4501 (EHEC) BAT-0006682 CDS
Automated Process Approved Go view Escherichia coli EC508 (EHEC) BBJ-0006599 CDS
Automated Process Approved Go view Escherichia coli EC869 (EHEC) BBC-0008127 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027455 hyfI CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007294 CDS
Person Approved Go view Escherichia coli K-12 DH10B AEC-0002345 hyfI CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002559 hyfI CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002893 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002822 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002635 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133370 hyfI CDS
Automated Process Approved Go view Escherichia coli TW14588 (EHEC) BBK-0003676 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0003155 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0005868 CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0061485 hyfI CDS
Person Approved Go view Shigella boydii 227 ADV-0002770 hyfI CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008269 CDS
Automated Process Approved Go view Shigella dysenteriae 1012 BAA-0004413 CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0003068 hyfI CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0073834 hyfI CDS
Person Approved Go view Shigella flexneri 301 ABT-0088789 hyfI CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0002709 hyfI CDS
Person Approved Go view Shigella sonnei 046 ADD-0002806 hyfI CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002232 hyfI CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003602 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0008239 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0002185 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
FB22435mutantTn5 InsertionRequest the StrainABE-0008198hyfIhyfI::Tn5KAN-I-SceI at position 562 in Plus orientation ,+ pKD460Blattner 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 2605706 to 2616464
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008185hyfDCDSforward26048112606250Upstream
ABE-0008188hyfECDSforward26062622606912Upstream
ABE-0008191hyfFCDSforward26069172608497Upstream
ABE-0008194hyfGCDSforward26084872610154Upstream
ABE-0008196hyfHCDSforward26101642610709Overlaps Upstream
ABE-0008198hyfICDSforward26107062611464Matches
ABE-0008200hyfJCDSforward26114572611870Overlaps Downstream
ABE-0008204hyfRCDSforward26119002613912Downstream
ABE-0008206focBCDSforward26139342614782Downstream
ABE-0008208yfgOCDScomplement26148202615881Downstream
ABE-0008212bepACDSforward26160942617557Downstream
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.