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

ABE-0008196 (hyfH) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008196 showshow history
Names
hyfH JW2473 ECK2484 b2488
Product
hydrogenase 4 component H
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2610164 2610709 546 182
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001450 (IPR001450 (DEPRECATED) 4Fe-4S binding domain) Apr 2008
Automated Process Approved IPR017896 (IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain) Jul 2018
Automated Process Approved PF12838 (PF12838 4Fe-4S dicluster domain) 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 Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0051536 iron-sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
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:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name hyfH Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK2484 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2473 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2488 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product hydrogenase 4 component H Published Annotation - EcoCyc Accession Number: G7305
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 IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain Protein Sequence Similarity - InterPro Domain: IPR017896
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001450 (DEPRECATED) 4Fe-4S binding domain Protein Sequence Similarity - InterPro Domain: IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF12838 4Fe-4S dicluster domain Protein Sequence Similarity - PFAM Model Name: PF12838
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Approved EC number 1.-.-.- Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
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:EG14216 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1788833 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P77423 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P77423 Published Annotation - Swiss-Prot Accession Number: P77423 Jan 2005
Automated Process Approved db xref ASAP:ABE-0008196 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946965 Published Annotation - Entrez Gene Database ID: 946965
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 AAC75541.1 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: 2.50
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: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:IPR001450
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0051536 iron-sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001450
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:IPR001450
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 (205 gammaproteobacteria) APP-0004289 hyfH CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004988 hyfH CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003733 hyfH CDS
Ortholog
Person Approved Go view Dickeya dadantii 3937 ABF-0015742 hyfH CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006775 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006735 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0010368 CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002836 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003323 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006748 CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007204 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0000828 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007053 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0005574 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0005048 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0006618 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008550 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006267 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0006342 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0008201 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007999 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006681 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006598 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0008126 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027454 hyfH CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007293 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002344 hyfH CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002558 hyfH CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002894 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002821 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002634 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133369 hyfH CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0003675 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0005869 CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0061486 hyfH CDS
Person Approved Go view Shigella boydii 227 ADV-0002769 hyfH CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008268 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004412 CDS
Person Uncurated Go view Shigella dysenteriae 197 ADU-0003067 hyfH pseudogene
Person Approved Go view Shigella flexneri 2457T ABQ-0073833 hyfH CDS
Person Approved Go view Shigella flexneri 301 ABT-0088788 hyfH CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0002708 hyfH CDS
Person Approved Go view Shigella sonnei 046 ADD-0002805 hyfH CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0001146 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0008076 hyfH CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002230 hyfH 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
FB22434mutantTn5 InsertionRequest the StrainABE-0008196hyfHhyfH::Tn5KAN-I-SceI at position 348 in Minus orientation ,+ pKD460Blattner Laboratory
FB23580mutantTn5 InsertionRequest the StrainABE-0008196hyfHhyfH::Tn5KAN-I-SceI at position 406 in Plus orientation ,- pKD460Blattner Laboratory
FB23704mutantTn5 InsertionRequest the StrainABE-0008196hyfHhyfH::Tn5KAN-I-SceI at position 406 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 2605164 to 2615709
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008185hyfDCDSforward26048112606250Upstream
ABE-0008188hyfECDSforward26062622606912Upstream
ABE-0008191hyfFCDSforward26069172608497Upstream
ABE-0008194hyfGCDSforward26084872610154Upstream
ABE-0008196hyfHCDSforward26101642610709Matches
ABE-0008198hyfICDSforward26107062611464Overlaps Downstream
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.