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Expression|

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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] , ECK3729, JW3714, papF, uncF, b3736
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): atpBEFHAGDC^[2], atpIBEFHAGDC^[2]
Regulation/Activity
Quick Links
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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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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	84.46 minutes	MG1655: 3918911..3918441 <gbrowseImage> name=NC_000913:3918441..3918911 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3881254..3880784 <gbrowseImage> name=NC_012967:3880784..3881254 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3806774..3807244 <gbrowseImage> name=NC_012759:3806774..3807244 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3715793..3716263 <gbrowseImage> name=NC_007779:3715793..3716263 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4016495..4016025 <gbrowseImage> name=NC_010473:4016025..4016495 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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 Type	Strain	Genomic Location	Evidence	Reference	Notes
Coding Start (SO:0000323)	MG1655	3918441	Edman degradation	PMID:6278247 PMID:9298646
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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.

Allele	Nt change(s)	AA change(s)	Reference	Availability	Comments
ΔatpF (Keio:JW3714)	deletion	deletion	PMID:16738554	Shigen CGSC10715^[5]
atpF::Tn5KAN-I-SceI (FB21425)	Insertion at nt 159 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21425	contains pKD46
atpF469				CGSC:7170
ΔatpF765::kan			PMID:16738554	CGSC:100144
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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

Resource	Resource Type	Source	Notes/Reference
JW3714	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAATCTTAACGCAACAATCCT Primer 2:CCaAGTTCAGCGACAAGTTTATC
2A1	Kohara Phage	Genobase	PMID:3038334
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.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10103	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10103	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000099	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948247	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0101	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012217	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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] , ECK3729, JW3714, papF, uncF, b3736
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)	3.6.3.14^[1]
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Notes

Function

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

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	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	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997	C	Seeded from EcoCyc (v14.0)	complete
Contributes to	GO:0046961	proton-transporting ATPase activity, rotational mechanism	PMID:2863271	IMP: Inferred from Mutant Phenotype		F		complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0015078	hydrogen ion transmembrane transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002146	F	Seeded from EcoCyc (v14.0)	complete
	GO:0045263	proton-transporting ATP synthase complex, coupling factor F(o)	PMID:6460031	IMP: Inferred from Mutant Phenotype		C		complete
	GO:0015078	hydrogen ion transmembrane transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005864	F	Seeded from EcoCyc (v14.0)	complete
	GO:0015986	ATP synthesis coupled proton transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002146	P	Seeded from EcoCyc (v14.0)	complete
	GO:0015986	ATP synthesis coupled proton transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005864	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9904	C	Seeded from EcoCyc (v14.0)	complete
	GO:0045263	proton-transporting ATP synthase complex, coupling factor F(o)	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002146	C	Seeded from EcoCyc (v14.0)	complete
	GO:0045263	proton-transporting ATP synthase complex, coupling factor F(o)	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005864	C	Seeded from EcoCyc (v14.0)	complete
	GO:0045263	proton-transporting ATP synthase complex, coupling factor F(o)	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0138	C	Seeded from EcoCyc (v14.0)	complete
	GO:0046933	hydrogen ion transporting ATP synthase activity, rotational mechanism	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01398	F	Seeded from EcoCyc (v14.0)	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 Type	Partner	Notes
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.

Compartment	Description	Evidence	Reference/Source	Notes
Inner Membrane		PMID:6278247, PMID:9298646	EchoLocation:atpF
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Notes

Structure and Physical Properties

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

Name
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.

Type	Residues	Description	Notes	References
Domain	6..137	PF00430 ATP synthase B/B' CF(0)		PMID:19920124
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<motif_map/>

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

Structures

<beststructure> gene=atpF taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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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 type	Source	Notes/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.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16131604	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948247	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012217	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ABA0	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10103	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10103	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948247	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000099	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0101	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	8.92E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	17866	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	4477	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	5549	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
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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

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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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<protect><gbrowseImage> name=NC_000913:3918891..3918931 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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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

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

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
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 Name	Resource Type	Description	Source	Notes
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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.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10103	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0101	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3736
EcoGene	EcoGene:EG10103	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000099	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012217	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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.

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

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF00430 ATP synthase B/B' CF(0)
Superfamily (EcoliWiki Page)	SUPERFAMILY:81573
EcoCyc	EcoCyc:EG10103	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10103	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000099	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0101	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012217	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^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)
↑ ^2.00 ^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
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 ^3.7 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^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).

atpF:On One Page

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Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to atpF Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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