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

ABE-0008181 (hyfB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008181 showshow history
Names
hyfB yffF JW2467 ECK2478 b2482
Product
hydrogenase 4 membrane subunit
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2601818 2603836 2019 673
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR003918 (IPR003918 NADH:ubiquinone oxidoreductase) Apr 2008
Automated Process Approved IPR001750 (IPR001750 NADH:quinone oxidoreductase/Mrp antiporter, membrane subunit) Apr 2008
Automated Process Approved PF00361 (PF00361 Proton-conducting membrane transporter) 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 cellular component GO:0005886 plasma 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 hyfB Published Sequence Analysis - PubMed ID: 9387241
Reference: Escherichia coli K-12
May 2007
Automated Process Approved synonym yffF Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655
Oct 2013
Person Approved synonym ECK2478 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2467 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2482 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product hydrogenase 4 membrane subunit Published Sequence Analysis - PubMed ID: 9387241
Reference: Escherichia coli K-12
Oct 2021
Person Uncurated alternate product name hydrogenase 4, B membrane subunit Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR003918 NADH:ubiquinone oxidoreductase Protein Sequence Similarity - InterPro Domain: IPR003918
Reference: Escherichia coli K-12 MG1655
Apr 2008
Automated Process Approved protein family IPR001750 NADH:quinone oxidoreductase/Mrp antiporter, membrane subunit Protein Sequence Similarity - InterPro Domain: IPR001750
Reference: Escherichia coli K-12 MG1655
Apr 2008
Automated Process Approved protein family PF00361 Proton-conducting membrane transporter Protein Sequence Similarity - PFAM Model Name: PF00361
Reference: Escherichia coli K-12 MG1655
Jul 2018
Other
Person Approved EC number 1.-.-.- Published Annotation - Swiss-Prot Accession Number: P23482 Feb 2006
Person Uncurated MultiFun 7.3 (location of gene products; inner membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 6.1 (cell structure; membrane) 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
Automated Process Approved codon start 1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655
Oct 2013
Person Approved db xref UniProtKB:P23482 Published Annotation - Swiss-Prot Accession Number: P23482 Jan 2005
Automated Process Approved db xref GeneID:946961 Published Annotation - Entrez Gene Database ID: 946961
Reference: Escherichia coli K-12 MG1655
Jun 2009
Automated Process Approved db xref UniProtKB/Swiss-Prot:P23482 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655
Oct 2013
Automated Process Approved db xref EcoGene:EG11282 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655
Oct 2013
Automated Process Approved db xref ASAP:ABE-0008181 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655
Oct 2013
Automated Process Approved db xref GI:1788827 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 membrane subunit; GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0019866 - organelle inner membrane; 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 AAC75535.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655
Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Membrane Predicted by PSORTb - PSORTb Final_Score: 10.00
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 cellular component GO:0005886 plasma 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-0002655 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0004181 hyfB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001908 hyfB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004090 hyfB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003642 hyfB CDS
Ortholog
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0007619 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0015736 hyfB CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0002696 CDS
Automated Process Approved Go view Escherichia coli 101-1 (EAEC) BAB-0006782 hyfB CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006743 CDS
Person Uncurated Go view Escherichia coli B7A (ETEC) ADK-0011096 pseudogene
Person Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002827 hyfB pseudogene
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003317 CDS
Automated Process Approved Go view Escherichia coli E22 (EPEC) ADL-0008540 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4024 (EHEC) BBI-0000822 CDS
Automated Process Approved Go view Escherichia coli EC4042 (EHEC) BBA-0007047 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4045 (EHEC) BBB-0005568 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4076 (EHEC) BAZ-0005042 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4113 (EHEC) BAY-0006624 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008544 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4196 (EHEC) BAX-0006273 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4206 (EHEC) BAW-0006336 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4401 (EHEC) BAV-0008195 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4486 (EHEC) BAU-0007993 hyfB CDS
Automated Process Approved Go view Escherichia coli EC4501 (EHEC) BAT-0006675 hyfB CDS
Automated Process Approved Go view Escherichia coli EC508 (EHEC) BBJ-0006592 hyfB CDS
Automated Process Approved Go view Escherichia coli EC869 (EHEC) BBC-0008120 hyfB CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027448 hyfB CDS
Person Approved Go view Escherichia coli K-12 DH10B AEC-0002338 hyfB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002552 hyfB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003107 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002900 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002814 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002628 hyfB CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133363 hyfB CDS
Automated Process Approved Go view Escherichia coli TW14588 (EHEC) BBK-0003669 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0005879 CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0061492 hyfB CDS
Person Approved Go view Shigella boydii 227 ADV-0002763 hyfB pseudogene
Automated Process Approved Go view Shigella dysenteriae 1012 BAA-0004406 hyfB CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0003061 hyfB CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0073826 hyfB pseudogene
Person Approved Go view Shigella flexneri 301 ABT-0088782 hyfB pseudogene
Person Approved Go view Shigella sonnei 046 ADD-0002799 hyfB CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0001152 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0008055 hyfB CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002224 hyfB CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001337 hyfB CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003595 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
FB22428mutantTn5 InsertionRequest the StrainABE-0008181hyfBhyfB::Tn5KAN-I-SceI at position 1390 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 2596818 to 2608836
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008156purCCDScomplement25969052597618Upstream
ABE-0285524repeat_regionforward25976732597718Upstream
ABE-0008161bamCCDScomplement25978312598865Upstream
ABE-0008163dapACDScomplement25988822599760Upstream
ABE-0008168gcvRCDSforward25999062600478Upstream
ABE-0008171bcpCDSforward26004782600948Upstream
ABE-0008179hyfACDSforward26012012601818Overlaps Upstream
ABE-0008181hyfBCDSforward26018182603836Matches
ABE-0008183hyfCCDSforward26038472604794Downstream
ABE-0008185hyfDCDSforward26048112606250Downstream
ABE-0008188hyfECDSforward26062622606912Downstream
ABE-0008191hyfFCDSforward26069172608497Downstream
ABE-0008194hyfGCDSforward26084872610154Downstream
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.