FlyBase Gene Report: Dmel\Datp

General Information

Symbol

Dmel\Datp

Species

D. melanogaster

Name

Diadenosine tetraphosphatase

Annotation Symbol

CG31713

Feature Type

protein_coding_gene

FlyBase ID

FBgn0287788

Gene Model Status

Current

Stock Availability

7 publicly available

Enzyme Name (EC)

bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (3.6.1.17)

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

Apf

Key Links

Genomic Location

Cytogenetic map

30F1-30F1

Sequence location

2L:9,938,178..9,938,790 [-]

Recombination map

2-38

RefSeq locus

NT_033779 REGION:9938178..9938790

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (4 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 bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity

inferred from sequence or structural similarity with WB:WBGene00003581

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000482012

(GO Reference Genome Project, 2011-)

enables bis(5'-nucleosyl)-tetraphosphatase activity

inferred from electronic annotation with InterPro:IPR003565

(InterPro Project Members, 2004-)

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 AMP biosynthetic process

inferred from biological aspect of ancestor with PANTHER:PTN000482012

(GO Reference Genome Project, 2011-)

involved_in ATP biosynthetic process

inferred from biological aspect of ancestor with PANTHER:PTN000482012

(GO Reference Genome Project, 2011-)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

UNCLASSIFIED ACID ANHYDRIDE HYDROLASES

Protein Family (UniProt)

Protein Signatures (InterPro)

Catalytic Activity (EC/Rhea)

bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity

P(1),P(4)-bis(5'-guanosyl) tetraphosphate + H2O = GMP + GTP + 2 H(+) (3.6.1.17)

RHEA 22484:

Summaries

Gene Group (FlyBase)

UNCLASSIFIED ACID ANHYDRIDE HYDROLASES -: This group comprises acid anhydride hydrolases that do not classify under other groups in FlyBase.

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Datp 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 Q4V6M1)

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

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

Gene model reviewed during 5.45

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Datp-RA

FBtr0079895

NM_164880

555

142

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

Datp-PA

FBpp0079490

16.6

142

5.04

Q4V6M1

NP_723505

AAN10714

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

26 (kD)

(Vallejo and Leon, 1989)

Comments

Datp was purified from embryos. The enzyme

requires divalent cations for activity and is maximally stimulated by

Co²⁺. Activity is competitively inhibited by nucleoside mono-, di-, and

triphosphates and particularly strongly by adenosine tetraphosphate. The

optimum pH is 7.5 and the enzyme is stable over a wide range of pH. Zn²⁺

and Ca²⁺ are inhibitors of the enzyme.

(Vallejo and Leon, 1989)

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q4V6M1

Mapped Features

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

External Data

Crossreferences

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).

1.46

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

No Assay Recorded

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage & oogenesis

oocyte

(Vallejo and Leon, 1989)

enzyme assay or biochemical detection

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

(Vallejo and Leon, 1989)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Datp enzyme activity is detected in mature oocytes and reaches a peak at about 1.5hrs after fertilization. It then decreases and stays at a constant level throughout embryogenesis.

(Vallejo and Leon, 1989)

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\Datp in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Datp

View exonic expression by tissue for Dmel\Datp

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

318908/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0287788

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0051713

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0287788

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 2 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Datp

Transgenic constructs containing regulatory region of Datp

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(2L)Exel7043

(Ryder, 2004.4.26)

Inferred from location ( 6 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

partially lethal, with Scer\GAL4^tin.CΔ4

Datp^GD15139

viable

Datp^EY11972

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Datp^GD15139

viable, with Scer\GAL4^pnr-MD237

Datp^GD15139

Sterility

Allele

fertile

Datp^EY11972

Other Phenotypes

Allele

abnormal pain response | adult stage, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Datp^GD15139

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (13)

Hsap\NUDT2

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (11)

Rnor\Nudt2

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Rnor\Nudt18

1 of 14

Mus musculus (laboratory mouse) (13)

Mmus\Nudt2

12 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (4)

Xtro\nudt2

8 of 13

Yes

Xtro\LOC100495877

1 of 13

Yes

Xtro\mpp2

1 of 13

Xtro\trac

1 of 13

Yes

Danio rerio (Zebrafish) (13)

Drer\nudt2

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Drer\nudt19

1 of 14

Drer\tpk2

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (7)

Cele\ndx-4

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (9)

Agam\AgaP_AGAP008495

12 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (23)

Atha\NUDT4

2 of 13

Yes

Atha\NUDT12

2 of 13

Yes

Atha\NUDT21

2 of 13

Yes

Atha\NUDX13

2 of 13

Yes

Atha\DCP2

1 of 13

Atha\NUDT2

1 of 13

Atha\NUDT3

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\NUDX14

1 of 13

Yes

Atha\NUDX15

1 of 13

Atha\NUDX25

1 of 13

Atha\NUDX26

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\DCP2

1 of 13

Yes

Scer\DDP1

1 of 13

Yes

Scer\PCD1

1 of 13

Yes

Scer\YJR142W

1 of 13

Yes

Scer\YSA1

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (6)

Spom\dcp2

2 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Escherichia coli (enterobacterium) (10)

Ecol\nudB

3 of 11

Yes

Ecol\nudI

3 of 11

Yes

Ecol\rppH

3 of 11

Yes

Ecol\mutT

2 of 11

Yes

Ecol\nudE

2 of 11

Ecol\nudG

2 of 11

Yes

1 of 11

1 of 11

1 of 11

1 of 11

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Datp. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (11)

Aps

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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 ( 1 )

Allele

Disease

Interaction

References

Datp^GD15139

exacerbates tauopathy

modeled by Hsap\MAPT^R406W.UAS

(Butzlaff et al., 2015)

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?

NUDT2; nudix hydrolase 2

13 of 14

602852

INTELLECTUAL DEVELOPMENTAL DISORDER WITH OR WITHOUT PERIPHERAL NEUROPATHY; IDDPN

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

Other Interaction Browsers

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

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.

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.

Detoxification of Reactive Oxygen Species

Class of Gene

gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-38

Cytogenetic map

30F1-30F1

Sequence location

2L:9,938,178..9,938,790 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

30F1-30F1

Limits computationally determined from genome sequence between P{EP}CG5899^EP701 and P{EP}CG4747^EP594&P{lacW}l(2)k13305^k13305

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-38

(FlyBase, 2016)

2-32.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (7)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

20831

y¹ w^67c23; P{EPgy2}Datp^EY11972

57237

y¹ sc^* v¹ sev²¹; P{TRiP.HMC04623}attP40

FlyORF

F003527

M{UAS-Datp.ORF.3xHA.GW}ZH-86Fb

NIG-Fly

HMJ23912

y¹ v¹; P{TRiP.HMJ23912}attP40/CyO

2LG-2213

y² VhaAC39-1^cho-1 v¹; P{U6-Datp.NIG.sgRNA}attP40/CyO

VDRC

v102412

P{KK111614}VIE-260B

v39150

w¹¹¹⁸; P{GD15139}v39150

Genomic Clones (10)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (6)

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

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

New annotation (CG31713) in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Datp gene product levels are regulated during embryogenesis. Datp is involved in the activation of nuclear division.

(Vallejo and Leon, 1989)

Relationship to Other Genes

Source for database merge of

Source for merge of: Apf Datp

(FlyBase, 1992-)

Additional comments

Through to FB2020_03, 'Datp' (FBgn0004402) existed as an unannotated (i.e. non-CG) gene representing the Diadenosine tetraphosphatase enzyme, as characterized biochemically in FBrf0050097 (the only associated publication). The only gene product in the sequenced genome annotated to have this activity is the product of the 'Apf' gene (FBgn0051713). Moreover, the biochemical and expression characteristics described for 'Datp' in FBrf0050097 are compatible for those of 'Apf'. The two gene reports were merged on this basis.

(FlyBase, 1992-)

Nomenclature History

Source for database identify of

Source for identity of: Apf CG31713

(Winward et al., 2005.1.26)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

Ap₄A

(Vallejo and Leon, 1989)

Apf

(Butzlaff et al., 2015, Celniker, 2007.1.26)

CG31713

(National Institute of Genetics Fly Stocks, 2023-, National Institute of Genetics Fly Stocks, 2022-, Aradska et al., 2015, Butzlaff et al., 2015, Ni et al., 2010.12.1, Keleman et al., 2009.8.5)

Datp

FB2020_03

(Watanabe and Riddle, 2021)

IP04585

(Celniker, 2007.1.26)

Name Synonyms

Diadenosine tetraphosphatase

diadenosine tetraphosphate hydrolase

Secondary FlyBase IDs

FBgn0051713
FBgn0004226
FBgn0004238
FBgn0004402

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 30 )

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.

318908

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.

Q4V6M1

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Q4V6M1

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.

Q4V6M1

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

318908/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0287788

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0287788

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG31713

MARRVEL_MODEL - MARRVEL (model organism gene)

318908

Linkouts

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0051713

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0287788

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC031183

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.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Detoxification of Reactive Oxygen Species

References (34)

The following external sites may use different assemblies or annotations than FlyBase.

1.46

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