FB2025_01 , released February 20, 2025
Gene: Dmel\ATPsynE
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General Information
Symbol
Dmel\ATPsynE
Species
D. melanogaster
Name
ATP synthase, subunit E
Annotation Symbol
CG3321
Feature Type
protein_coding_gene
FlyBase ID
FBgn0038224
Gene Model Status
Current
Stock Availability
4 publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

c550

Key Links
Genomic Location
Cytogenetic map
88B4-88B4
Sequence location
Recombination map
3-55
RefSeq locus
NT_033777 REGION:14326947..14327735
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (6 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables proton transmembrane transporter activity
inferred from electronic annotation with InterPro:IPR008386
(InterPro Project Members, 2004-)
contributes_to proton-transporting ATP synthase activity, rotational mechanism
inferred from sequence or structural similarity with UniProtKB:P56385
(Gene Ontology Curators, 2002-)
Biological Process (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in proton motive force-driven ATP synthesis
inferred from electronic annotation with InterPro:IPR008386
(InterPro Project Members, 2004-)
inferred from sequence or structural similarity with SGD:S000007255
(Gene Ontology Curators, 2002-)
involved_in proton transmembrane transport
inferred from sequence or structural similarity with UniProtKB:P56385
(Sardiello et al., 2003.6.11)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
is_active_in mitochondrial inner membrane
inferred by curator from GO:0045259
(FlyBase Curators, 2016-)
part_of proton-transporting ATP synthase complex
inferred from sequence or structural similarity with UniProtKB:P29419
(Gene Ontology Curators, 2002-)
inferred from biological aspect of ancestor with PANTHER:PTN001752424
(GO Reference Genome Project, 2011-)
non-traceable author statement
(Porcelli et al., 2007)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Catalytic Activity (EC/Rhea)
proton-transporting ATP synthase activity, rotational mechanism
RHEA 57722:
Summaries
Gene Group (FlyBase)
MITOCHONDRIAL COMPLEX V - F0 SUBUNITS -
Mitochondrial ATP synthase (Complex V) synthesizes ATP from ADP and inorganic phosphate using the energy provided by the proton electrochemical gradient across the inner mitochondrial membrane. It consists of two structural domains: the F1 sector, a soluble portion situated in the mitochondrial matrix, and the F0 sector, which spans the inner mitochondrial membrane. The F0 sector consists of an integral membrane proton-conducting channel and a peripheral stalk domain. (Adapted from PMID:21874297).
MITOCHONDRIAL COMPLEX V - TESTIS-SPECIFIC VARIANT -
Mitochondrial ATP synthase (Complex V) synthesizes ATP from ADP and inorganic phosphate using the energy provided by the proton electrochemical gradient (proton-motive force) across the inner mitochondrial membrane generated by electron transport complexes of the respiratory chain. It is an F-type ATPase and consists of two structural domains: the F1 sector, a soluble portion situated in the mitochondrial matrix, and the F0 sector, which spans the inner mitochondrial membrane. Protons pass from the inter membrane space to the matrix through F0, which transfers the energy created by the proton-motive force to F1 where ADP is phosphorylated to ATP using a rotational mechanism. (Adapted from PMID:23356252 and PMID:21874297).
MITOCHONDRIAL COMPLEX V -
Mitochondrial ATP synthase (Complex V) synthesizes ATP from ADP and inorganic phosphate using the energy provided by the proton electrochemical gradient (proton-motive force) across the inner mitochondrial membrane generated by electron transport complexes of the respiratory chain. It is an F-type ATPase and consists of two structural domains: the F1 sector, a soluble portion situated in the mitochondrial matrix, and the F0 sector, which spans the inner mitochondrial membrane. Protons pass from the inter membrane space to the matrix through F0, which transfers the energy created by the proton-motive force to F1 where ADP is phosphorylated to ATP using a rotational mechanism. (Adapted from PMID:23356252 and PMID:21874297).
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\ATPsynE for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry O77134)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

Gene model reviewed during 5.41

Low-frequency RNA-Seq exon junction(s) not annotated.

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

Gene model reviewed during 5.48

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
ATPsynE-RA
FBtr0082931
NM_142099
543
81
ATPsynE-RB
FBtr0082932
NM_169579
599
81
ATPsynE-RC
FBtr0303795
NM_001202292
664
81
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
ATPsynE-PA
FBpp0082390
9.0
81
10.81
O77134
NP_650356
AAG22153
ATPsynE-PB
FBpp0082391
9.0
81
10.81
O77134
NP_731903
AAF55049
ATPsynE-PC
FBpp0292847
9.0
81
10.81
O77134
NP_001189221
ADV37312
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

81 aa isoforms: ATPsynE-PA, ATPsynE-PB, ATPsynE-PC
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\ATPsynE using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

0.04

Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
day 5 of adulthood & male -- day 7 of adulthood & male
spermatozoon
(Wasbrough et al., 2010, Dorus et al., 2006)
day 7 of adulthood -- day 49 of adulthood
adult heart
(Cammarato et al., 2011)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\ATPsynE in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 3 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 5 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of ATPsynE
Transgenic constructs containing regulatory region of ATPsynE
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation ( 1 )
Gene disrupted in
Df(3R)Exel6267
(Ryder, 2004.4.26)
Inferred from location ( 6 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (1)
Hsap\ATP5ME
8 of 14
Yes
Yes
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (1)
Rnor\Atp5me
8 of 14
Yes
Yes
Mus musculus (laboratory mouse) (1)
Mmus\Atp5k
8 of 14
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
Xtro\atp5me
6 of 13
Yes
Yes
Danio rerio (Zebrafish) (2)
Drer\atp5mea
7 of 14
Yes
Yes
Drer\atp5meb
7 of 14
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\R04F11.2
6 of 14
Yes
Yes
Anopheles gambiae (African malaria mosquito) (1)
Agam\AgaP_AGAP006879
11 of 12
Yes
Yes
Arabidopsis thaliana (thale-cress) (0)
Saccharomyces cerevisiae (Brewer's yeast) (0)
Schizosaccharomyces pombe (Fission yeast) (0)
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:ATPsynE. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    ATP5ME; ATP synthase membrane subunit e
    8 of 14
    601519
        Functional Complementation Data
        Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
        Interactions
        Summary of Physical Interactions
        esyN Network Diagram
        Show neighbor-neighbor interactions:
        Show/hide secondary interactors 
        (data from AllianceMine provided by esyN)
        Select Layout:
        Legend:
        Protein
        RNA
        Selected Interactor(s)
        Other Interaction Browsers
        View in FlyBase Interactions Browser   View in MIST tool (external link)
        Please see the Physical Interaction reports below for full details
        protein-protein
        Physical Interaction
        Assay
        References
        ATPsynE - ATPsynB
        experimental knowledge based, blue native page, peptide massfingerprinting
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - ATPsynCF6
        blue native page, peptide massfingerprinting, experimental knowledge based
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - ATPsynD
        blue native page, peptide massfingerprinting, experimental knowledge based
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - ATPsynF
        blue native page, peptide massfingerprinting, experimental knowledge based
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - ATPsynG
        blue native page, peptide massfingerprinting, experimental knowledge based
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - ATPsynO
        experimental knowledge based, blue native page, peptide massfingerprinting
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - ATPsynβ
        blue native page, peptide massfingerprinting
        (Rahman et al., 2014)
        ATPsynE - ATPsynδ
        blue native page, peptide massfingerprinting, experimental knowledge based
        (Rahman et al., 2014, Guruharsha et al., 2011)
        ATPsynE - Cpr78E
        blue native page, peptide massfingerprinting
        (Rahman et al., 2014)
        ATPsynE - blw
        blue native page, peptide massfingerprinting
        (Rahman et al., 2014)
        ATPsynE - sun
        experimental knowledge based, blue native page, peptide massfingerprinting
        (Rahman et al., 2014, Guruharsha et al., 2011)
        Summary of Genetic Interactions
        esyN Network Diagram
        Other Interaction Browsers
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        External Data
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        FlyBase
        External Links
        FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
        KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.
        Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
        External Data
        Linkouts
        KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Class of Gene
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        3R
        Recombination map
        3-55
        Cytogenetic map
        88B4-88B4
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        88B4-88B4
        Limits computationally determined from genome sequence between P{lacW}trxj14A6&P{PZ}trx00347 and P{PZ}cv-c06951
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        88B-88B
        (Ray, 1998.6.1)
        Experimentally Determined Recombination Data
        Location

        3-55

        (FlyBase, 2016)

        3-53.1

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (4)
        Genomic Clones (19)
        cDNA Clones (100)
         

        Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

        cDNA clones, fully sequenced
        BDGP DGC clones
        Other clones
        Drosophila Genomics Resource Center cDNA clones

        For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

        cDNA Clones, End Sequenced (ESTs)
        BDGP DGC clones
        Other clones
        RNAi and Array Information
        Linkouts
        DRSC - Results frm RNAi screens
        Antibody Information
        Laboratory Generated Antibodies
         
        Commercially Available Antibodies
         
        Cell Line Information
        Publicly Available Cell Lines
         
          Other Stable Cell Lines
           
            Other Comments

            550bp transcription unit identified during molecular analysis of the spn-B genomic region.

            (Ghabrial et al., 1998)
            Relationship to Other Genes
            Source for database merge of

            Source for merge of: anon-88Bd CG3321

            (Bayraktaroglu, 2000.4.13)
            Additional comments
            Nomenclature History
            Source for database identify of

            Source for identity of: ATPsynE CG3321

            (Porcelli and Marygold, 2014.9.16)
            Nomenclature comments
            Etymology
            Synonyms and Secondary IDs (10)
            Datasets (0)
            Study focus (0)
            Experimental Role
            Project
            Project Type
            Title
            Study result (0)
            Result
            Result Type
            Title
            External Crossreferences and Linkouts ( 48 )
            Sequence Crossreferences
            NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
            GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
            GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
            RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
            UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
            UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
            Other crossreferences
            AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
            DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
            EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
            FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
            FlyMine - An integrated database for Drosophila genomics
            InterPro - A database of protein families, domains and functional sites
            KEGG Genes - Molecular building blocks of life in the genomic space.
            MARRVEL_MODEL - MARRVEL (model organism gene)
            Linkouts
            BioGRID - A database of protein and genetic interactions.
            Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
            DroID - A comprehensive database of gene and protein interactions.
            DRSC - Results frm RNAi screens
            Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
            FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
            FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
            FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
            Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
            Flygut - An atlas of the Drosophila adult midgut
            FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
            iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
            KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.
            KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
            MIST (protein-protein) - An integrated Molecular Interaction Database
            Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
            Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
            References (62)