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atpF:On One Page

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Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

atpF

Gene Synonym(s)

ECK3729, b3736, JW3714, papF, uncF, unc[1]

Product Desc.

ATP synthase, F0 complex, b subunit[2][3];

Component of b subunit complex[2][3]; ATP synthase, F0 complex[2][3]; ATP synthase[2][3]

ATP synthase subunit b, membrane-bound, F0 sector[4]

Product Synonyms(s)

F0 sector of membrane-bound ATP synthase, subunit b[1], B3736[2][1], Unc[2][1], UncF[2][1], PapF[2][1], AtpF[2][1], B chain[2][1]

Function from GO

Cellular Component

Biological Process

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): atpBEFHAGDC[2], atpIBEFHAGDC[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(atpF)    Textpresso(atpF)

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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

atpF

Mnemonic

ATP

Synonyms

ECK3729, b3736, JW3714, papF, uncF, unc[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

84.46 minutes 

MG1655: 3918911..3918441
gbrowse_img.php?coord=3918441..3918911&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3881254..3880784
gbrowse_img.php?coord=3880784..3881254&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 3715793..3716263
gbrowse_img.php?coord=3715793..3716263&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 4016495..4016025
gbrowse_img.php?coord=4016025..4016495&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 3806774..3807244
gbrowse_img.php?coord=3806774..3807244&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature typeLocationDescription
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔatpF (Keio:JW3714)

deletion

deletion

PMID:16738554

Shigen
CGSC10715[5]

atpF::Tn5KAN

PMID:12519969

ASAP

At position 159 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB21425

atpF469

CGSC:7170

ΔatpF765::kan

PMID:16738554

CGSC:100144


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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

ResourceResource TypeSourceNotes/Reference

JW3714

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATCTTAACGCAACAATCCT

Primer 2:CCaAGTTCAGCGACAAGTTTATC

zid-501::Tn10

Linked marker

CAG18499 = CGSC7458[5]

est. P1 cotransduction: 14% [6]

rbsD296::Tn10

Linked marker

CAG18501 = CGSC7460[5]

est. P1 cotransduction: 68% [6]
Synonyms:zie-296::Tn10

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10103

EchoBASE (EcoliWiki Page)

EchoBASE:EB0101

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3736

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4664

EcoGene (EcoliWiki Page)

EcoGene:EG10103

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:ATPF

CGSC (EcoliWiki Page)

CGSC:28

ASAP (EcoliWikiPage)

ASAP:ABE-0012217


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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

AtpF

Synonyms

F0 sector of membrane-bound ATP synthase, subunit b[1], B3736[2][1], Unc[2][1], UncF[2][1], PapF[2][1], AtpF[2][1], B chain[2][1]

Product description

ATP synthase, F0 complex, b subunit[2][3];

Component of b subunit complex[2][3]; ATP synthase, F0 complex[2][3]; ATP synthase[2][3]

ATP synthase subunit b, membrane-bound, F0 sector[4]

EC number (for enzymes)
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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0015986

ATP synthesis coupled proton transport

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002146
InterPro:IPR005864

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0015078

hydrogen ion transmembrane transporter activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0375

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0006811

ion transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0406

P

Seeded from EcoCyc [8]

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc [8]

complete

GO:0046961

hydrogen ion transporting ATPase activity, rotational mechanism

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005864

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0015992

proton transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0375

P

Seeded from EcoCyc [8]

complete

GO:0016020

membrane

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0397
SP_KW:KW-0472

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc [8]

complete

GO:0016469

proton-transporting two-sector ATPase complex

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002146
InterPro:IPR005864

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0016820

hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002146

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0045263

proton-transporting ATP synthase complex, coupling factor F(o)

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0138

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0046933

hydrogen ion transporting ATP synthase activity, rotational mechanism

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005864

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0031225

anchored to membrane

PMID:2863271

IDA: Inferred from Direct Assay

C

Seeded from Riley et al 2006 [1].

complete

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc [8]

complete

GO:0006754

ATP biosynthetic process

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0066

P

Seeded from EcoCyc [8]

complete

GO:0046872

metal ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0066

F

Seeded from EcoCyc [8]

complete

GO:0015986

ATP synthesis coupled proton transport

PMID:2863271

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc 11.1[3].

complete

Contributes to

GO:0046961

hydrogen ion transporting ATPase activity, rotational mechanism

PMID:2863271

IMP: Inferred from Mutant Phenotype

F

complete

GO:0045263

proton-transporting ATP synthase complex, coupling factor F(o)

PMID:6460031

IMP: Inferred from Mutant Phenotype

C

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner TypePartnerNotesReferencesEvidence

Protein

Subunits of b subunit complex

could be indirect

Protein

Subunits of ATP synthase, F0 complex

could be indirect

Protein

Subunits of ATP synthase

could be indirect


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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

CompartmentDescriptionEvidenceSourceNotes

Inner Membrane

PMID:6278247, PMID:9298646

EchoLocation:atpF


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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MNLNATILGQ AIAFVLFVLF CMKYVWPPLM AAIEKRQKEI ADGLASAERA HKDLDLAKAS
ATDQLKKAKA EAQVIIEQAN KRRSQILDEA KAEAEQERTK IVAQAQAEIE AERKRAREEL
RKQVAILAVA GAEKIIERSV DEAANSDIVD KLVAEL
Length

156

Mol. Wt

17.263 kDa

pI

6.6 (calculated)

Extinction coefficient

6,990 - 7,115 (calc based on 1 Y, 1 W, and 1 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

TypeResiduesDescriptionNotesReferences
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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource typeSourceNotes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:ATPF-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0ABA0

PFAM (EcoliWiki Page)

PFAM:PF00430

RefSeq (EcoliWiki Page)

RefSeq:NP_418192


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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

atpBEFHAGDC

atpIBEFHAGDC

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Figure courtesy of RegulonDB

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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gbrowse_img.php?coord=3918891..3918931&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b3736 (EcoliWiki Page)

NCBI GEO profiles for atpF

microarray

GenExpDB:b3736 (EcoliWiki Page)

Summary of data for atpF from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to atpF Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10103

EchoBASE (EcoliWiki Page)

EchoBASE:EB0101

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3736

EcoGene (EcoliWiki Page)

EcoGene:EG10103


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Notes

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

OrganismHomologs (Statistics)Comments

Apis mellifera

  • ENSAPMP00000018545 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

ATPF

From SHIGELLACYC

E. coli O157

ATPF

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00430


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 2.12 2.13 2.14 2.15 2.16 2.17 2.18 2.19 2.20 2.21 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 7.6 7.7 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

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