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

ABE-0008194 (hyfG) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008194 showshow history
Names
hyfG JW2472 ECK2483 b2487
Product
hydrogenase 4 catalytic subunit
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2608487 2610154 1668 556
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001268 (IPR001268 NADH:ubiquinone oxidoreductase, 30kDa subunit) Apr 2008
Automated Process Approved IPR014029 (IPR014029 NADH:ubiquinone oxidoreductase, 49kDa subunit, conserved site) Apr 2008
Automated Process Approved IPR014364 (IPR014364 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, fused large subunit/NADH:quinone oxidoreductase, subunit NuoCD) Apr 2008
Automated Process Approved IPR014656 (IPR014656 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, fused large subunit) Apr 2008
Automated Process Approved IPR001501 (IPR001501 Nickel-dependent hydrogenase, large subunit) Apr 2008
Automated Process Approved IPR001135 (IPR001135 NADH-quinone oxidoreductase, subunit D) Apr 2008
Automated Process Approved IPR029014 (IPR029014 [NiFe]-hydrogenase, large subunit) Jul 2018
Automated Process Approved IPR037232 (IPR037232 NADH:ubiquinone oxidoreductase, 30kDa subunit superfamily) Jul 2018
Automated Process Approved PF00329 (PF00329 Respiratory-chain NADH dehydrogenase, 30 Kd subunit) Jul 2018
Automated Process Approved PF00374 (PF00374 Nickel-dependent hydrogenase) Jul 2018
Automated Process Approved PF00346 (PF00346 Respiratory-chain NADH dehydrogenase, 49 Kd subunit) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001268, IPR001135
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:IPR014364
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0051287 NAD binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0008137 NADH dehydrogenase (ubiquinone) activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001268
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0016651 oxidoreductase activity, acting on NAD(P)H GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0048038 quinone binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001135
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0051539 4 iron, 4 sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014656
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016491 oxidoreductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014656
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0008901 ferredoxin hydrogenase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001501
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016151 nickel cation binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001501
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0009055 electron transfer activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name hyfG Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW2472 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK2483 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2487 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: G7304
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Approved alternate product name hydrogenase 4, subunit Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name hydrogenase 4 subunit Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR014029 NADH:ubiquinone oxidoreductase, 49kDa subunit, conserved site Protein Sequence Similarity - InterPro Domain: IPR014029
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR014364 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, fused large subunit/NADH:quinone oxidoreductase, subunit NuoCD Protein Sequence Similarity - InterPro Domain: IPR014364
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR001268 NADH:ubiquinone oxidoreductase, 30kDa subunit Protein Sequence Similarity - InterPro Domain: IPR001268
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR014656 (DEPRECATED) [NiFe]-hydrogenase-3-type complex, fused large subunit Protein Sequence Similarity - InterPro Domain: IPR014656
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00374 Nickel-dependent hydrogenase Protein Sequence Similarity - PFAM Model Name: PF00374
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00346 Respiratory-chain NADH dehydrogenase, 49 Kd subunit Protein Sequence Similarity - PFAM Model Name: PF00346
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR037232 NADH:ubiquinone oxidoreductase, 30kDa subunit superfamily Protein Sequence Similarity - InterPro Domain: IPR037232
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00329 Respiratory-chain NADH dehydrogenase, 30 Kd subunit Protein Sequence Similarity - PFAM Model Name: PF00329
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001501 Nickel-dependent hydrogenase, large subunit Protein Sequence Similarity - InterPro Domain: IPR001501
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR029014 [NiFe]-hydrogenase, large subunit Protein Sequence Similarity - InterPro Domain: IPR029014
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001135 NADH-quinone oxidoreductase, subunit D Protein Sequence Similarity - InterPro Domain: IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Automated Process Uncurated EC number 7.1.1.2 Published Annotation - Database Name: EC2GO: GO:0008137
Reference: Escherichia coli K-12 MG1655 		Dec 2019
Person Approved EC number 1.-.-.- Published Annotation - Swiss-Prot Accession Number: P77329 Feb 2006
Automated Process Uncurated EC number 1.6.-.- Published Annotation - Database Name: EC2GO: GO:0016651
Reference: Escherichia coli K-12 MG1655 		Jul 2018
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:EG14215 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946964 Published Annotation - Entrez Gene Database ID: 946964
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1788832 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P77329 Published Annotation - Swiss-Prot Accession Number: P77329 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P77329 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0008194 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 hydrogenase 4 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 AAC75540.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 5.41
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated subcellular localization Periplasmic Predicted by PSORTb - PSORTb Final_Score: 4.48
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:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001268, IPR001135
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
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014364
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0016491 oxidoreductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR014656
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:IPR014656
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0008137 NADH dehydrogenase (ubiquinone) activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001268
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0051287 NAD binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0048038 quinone binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001135
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0016651 oxidoreductase activity, acting on NAD(P)H GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0009055 electron transfer activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001135
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016151 nickel cation binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001501
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0008901 ferredoxin hydrogenase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001501
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-0002548 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000242 hyfG CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001564 hyfG CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004151 hyfG CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000065 hyfG CDS
Ortholog
Person Approved Go view Dickeya dadantii 3937 ABF-0015741 hyfG CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006736 CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002835 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003322 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008549 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027453 hyfG CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007292 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002343 hyfG CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002557 hyfG CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003101 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0002929 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002895 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002820 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002633 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133368 hyfG CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0061487 hyfG CDS
Person Approved Go view Shigella boydii 227 ADV-0002768 hyfG CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008267 CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0003066 hyfG CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0285592 hyfG pseudogene
Person Uncurated Go view Shigella flexneri 301 ABT-0286361 hyfG pseudogene
Person Uncurated Go view Shigella flexneri 8401 BAG-0002707 hyfG pseudogene
Person Approved Go view Shigella sonnei 046 ADD-0002804 hyfG 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
FB22433mutantTn5 InsertionRequest the StrainABE-0008194hyfGhyfG::Tn5KAN-I-SceI at position 1354 in Plus orientation ,+ pKD460Blattner Laboratory
FB23579mutantTn5 InsertionRequest the StrainABE-0008194hyfGhyfG::Tn5KAN-I-SceI at position 1354 in Plus orientation ,- pKD460Blattner Laboratory
FB23703mutantTn5 InsertionRequest the StrainABE-0008194hyfGhyfG::Tn5KAN-I-SceI at position 1354 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 2603487 to 2615154
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008181hyfBCDSforward26018182603836Upstream
ABE-0008183hyfCCDSforward26038472604794Upstream
ABE-0008185hyfDCDSforward26048112606250Upstream
ABE-0008188hyfECDSforward26062622606912Upstream
ABE-0008191hyfFCDSforward26069172608497Overlaps Upstream
ABE-0008194hyfGCDSforward26084872610154Matches
ABE-0008196hyfHCDSforward26101642610709Downstream
ABE-0008198hyfICDSforward26107062611464Downstream
ABE-0008200hyfJCDSforward26114572611870Downstream
ABE-0008204hyfRCDSforward26119002613912Downstream
ABE-0008206focBCDSforward26139342614782Downstream
ABE-0008208yfgOCDScomplement26148202615881Downstream
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.