FlyBase Gene Report: Dmel\Dpit47

General Information

Symbol

Dmel\Dpit47

Species

D. melanogaster

Name

DNA polymerase interacting tpr containing protein of 47kD

Annotation Symbol

CG3189

Feature Type

protein_coding_gene

FlyBase ID

FBgn0266518

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

DNA polymerase interacting tpr containing protein of 47kD (Dpit47) encodes a TPR motif containing protein that appears to act as a co-chaperone protein in the Hsp90 pathway. [Date last reviewed: 2019-03-21] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
UniProtKB
Interactive Fly

Also Known As

cn20

Key Links

Genomic Location

Cytogenetic map

42C3-42C3

Sequence location

2R:6,660,645..6,662,118 [-]

Recombination map

2-55

RefSeq locus

NT_033778 REGION:6660645..6662118

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse JBrowse2 (beta)

Other Genome Views

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

Function

Gene Ontology (GO) Annotations (7 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

enables Hsp70 protein binding

inferred from direct assay

(Crevel et al., 2001)

enables Hsp90 protein binding

inferred from direct assay

(Crevel et al., 2001)

enables protein binding

inferred from physical interaction with UniProtKB:P26019

(Crevel et al., 2001)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables Hsp70 protein binding

inferred from biological aspect of ancestor with PANTHER:PTN002340063

(GO Reference Genome Project, 2011-)

enables Hsp90 protein binding

inferred from biological aspect of ancestor with PANTHER:PTN002340063

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR044059

(InterPro Project Members, 2004-)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in protein folding

inferred from biological aspect of ancestor with PANTHER:PTN002340063

(GO Reference Genome Project, 2011-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in nucleoplasm

inferred from direct assay

(Crevel et al., 2001)

located_in nucleus

inferred from direct assay

(Crevel et al., 2001)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

located_in cytoplasm

inferred from experiment

(Crevel et al., 2001)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN002340063

(GO Reference Genome Project, 2011-)

Gene Group / Complex (FlyBase)

Protein Family (UniProt)

Belongs to the TTC4 family. (A1Z6M6)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Protein Function (UniProtKB)

Co-chaperone that recruits molecular chaperones Hsp90 (HSC82 and HSP82) and Hsp70 (SSA1) to nascent polypeptides, facilitating their proper folding into functional proteins (PubMed:11493638). Client proteins include eukaryotic elongation factor eEF2, a key player in cellular translation. Stimulates SSA1 ATPase activity, but not Hsp90 ATPase activity (By similarity).

(UniProt, A1Z6M6)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Dpit47 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 A1Z6M6)

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 5.48

Gene model reviewed during 5.44

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Dpit47-RA

FBtr0086146

NM_080367

1417

396

Dpit47-RB

FBtr0336664

NM_001273800

1284

396

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

Dpit47-PA

FBpp0085479

46.9

396

5.98

FBpp0307645

46.9

396

5.98

A1Z6M6

NP_001260729

AGB93262

Polypeptides with Identical Sequences

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

396 aa isoforms: Dpit47-PA, Dpit47-PB

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Forms a complex with Hsp83 and Hsp70aa (PubMed:11493638). Interacts with DNApol-alpha180; the interaction inhibits the activity of the DNA polymerase and occurs only in proliferating cells but not in quiescent cells (PubMed:11493638).

(UniProt, A1Z6M6)

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

A1Z6M6

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Dpit47 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Dpit47_1

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).

2.01

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nucleoplasm

inferred from direct assay

(Crevel et al., 2001)

located_in nucleus

inferred from direct assay

(Crevel et al., 2001)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Dpit47 in JBrowse

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

View exonic expression by developmental stage for Dmel\Dpit47

View exonic expression by tissue for Dmel\Dpit47

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0266518

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

35565/tissue=All

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

FBgn0266518

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0033083

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

FBgn0266518

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 ( 4 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Dpit47

Transgenic constructs containing regulatory region of Dpit47

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(2R)hfl-37

(Rendina et al., 2010)

Inferred from location ( 5 )

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

lethal | recessive

Dpit47^LA00491

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

Dpit47^GD10397

viable, with Scer\GAL4^Mef2.PR

Dpit47^GD10397

viable, with Scer\GAL4^pnr-MD237

Dpit47^GD10397

viable, with Scer\GAL4^tin.CΔ4

Dpit47^GD10397

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) (22)

Hsap\TTC4

14 of 14

Yes

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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (16)

Rnor\Ttc4

13 of 14

Yes

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

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mus musculus (laboratory mouse) (15)

Mmus\Ttc4

13 of 14

Yes

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

1 of 14

1 of 14

Yes

Mmus\Zc3h7b

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (12)

Xtro\ttc4

7 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

Danio rerio (Zebrafish) (23)

Drer\ttc4

14 of 14

Yes

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

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Drer\zc3h7ba

1 of 14

Yes

Drer\zc3h7bb

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (6)

Cele\ttc-4

14 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (12)

Agam\AgaP_AGAP012044

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

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (21)

Atha\TPR2

9 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

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (6)

Scer\CNS1

10 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Schizosaccharomyces pombe (Fission yeast) (6)

Spom\cns1

10 of 12

Yes

Spom\SPAC2F3.02

1 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Dpit47. 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) (16)

Sgt

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

adp

1 of 13

CG6980

1 of 13

CG43163

1 of 13

Cyp40

1 of 13

HIP

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 ( 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?

TTC4; tetratricopeptide repeat domain 4

14 of 14

606753

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

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

Dpit47 - Hsp70Aa

anti bait coimmunoprecipitation, peptide massfingerprinting

(Crevel et al., 2001)

Dpit47 - Hsp83

anti bait coimmunoprecipitation, peptide massfingerprinting

(Crevel et al., 2001)

Dpit47 - PolA1

two hybrid, anti bait coimmunoprecipitation, western blot

(Crevel et al., 2001)

Dpit47 - PolA2

anti bait coimmunoprecipitation, western blot

(Crevel et al., 2001)

Dpit47 - Prim1

anti bait coimmunoprecipitation, western blot

(Crevel et al., 2001)

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Subunit Structure (UniProtKB)

(UniProt, A1Z6M6 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0266518

MIST (protein-protein) - An integrated Molecular Interaction Database

35565

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-55

Cytogenetic map

42C3-42C3

Sequence location

2R:6,660,645..6,662,118 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

42C3-42C3

Limits computationally determined from genome sequence between P{lacW}geminin^k14019&P{PZ}Adf1⁰¹³⁴⁹ and P{lacW}ubl^k03203&P{PZ}CG3287⁰⁹⁹⁶⁷

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-55

(FlyBase, 2016)

2-56.0

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

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

Bloomington

22239

y¹ w^*; P{Mae-UAS.6.11}Dpit47^LA00491/CyO; l(3)*^*/TM3, Sb¹ Ser¹

NIG-Fly

2RG-0860

y² VhaAC39-1^cho-1 v¹; P{U6-Dpit47.NIG.sgRNA}attP40/CyO

VDRC

v110401

P{KK101386}VIE-260B

v34017

w¹¹¹⁸; P{GD10397}v34017

Genomic Clones (21)

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

cDNA Clones (15)

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

AT19681

Other clones

FI19323

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.

FBgn0266518

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Crevel et al., 2001)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Identification: in a yeast two hybrid screen, using DNApol-α180 protein as a bait.

(Crevel et al., 2001)

Relationship to Other Genes

Source for database merge of

Additional comments

l(2)10521 may correspond to Dpit47: the P{PZ}l(2)10521¹⁰⁵²¹ insertion maps within the transcription unit.

(Gene Disruption Project members, 2015.10.8)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

CG3189

(National Institute of Genetics Fly Stocks, 2022-, Hosono et al., 2015, Keleman et al., 2009.8.5, Gandhi et al., 2007)

Dpit47

(Melvin et al., 2018, Bischof and FlyORF project members, 2014.6.20, Rendina et al., 2010, Ayroles et al., 2009, Loop et al., 2004, Crevel et al., 2001)

cn20

Name Synonyms

DNA polymerase interacting tpr containing protein of 47kD

(Crevel et al., 2001)

cn20

Secondary FlyBase IDs

FBgn0033083
FBgn0043045

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 28 )

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.

35565

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.

A1Z6M6

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

A1Z6M6

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.

A1Z6M6

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0266518

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

35565/tissue=All

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

FBgn0266518

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

FBgn0266518

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

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

dme:Dmel_CG3189

MARRVEL_MODEL - MARRVEL (model organism gene)

35565

Linkouts

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0266518

DroID - A comprehensive database of gene and protein interactions.

FBgn0266518

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Dpit47_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0033083

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

DMEL:FBGN0266518

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

TC030628

MIST (protein-protein) - An integrated Molecular Interaction Database

35565

References (34)

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

2.01

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