FlyBase Gene Report: Dmel\Hsc20

General Information

Symbol

Dmel\Hsc20

Species

D. melanogaster

Name

Heat shock protein cognate 20

Annotation Symbol

CG34246

Feature Type

protein_coding_gene

FlyBase ID

FBgn0263606

Gene Model Status

Current

Stock Availability

7 publicly available

Gene Summary

Heat shock protein cognate 20 (Hsc20) encodes a mitochondrial chaperone that facilitates iron sulfur cluster assembly or transfer from the product of IscU to other scaffold proteins. Hsc20 is required for larval growth and cellular iron sensing. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

l(3)72Do

Key Links

Genomic Location

Cytogenetic map

72D10-72D10

Sequence location

3L:16,233,127..16,234,165 [+]

Recombination map

3-44

RefSeq locus

NT_037436 REGION:16233127..16234165

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 (7 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables ATPase activator activity

inferred from electronic annotation with InterPro:IPR004640

(InterPro Project Members, 2004-)

enables protein-folding chaperone binding

inferred from electronic annotation with InterPro:IPR004640

(InterPro Project Members, 2004-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in iron-sulfur cluster assembly

inferred from mutant phenotype

(Uhrigshardt et al., 2013)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in [2Fe-2S] cluster assembly

inferred from biological aspect of ancestor with PANTHER:PTN000361285

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR004640

(InterPro Project Members, 2004-)

non-traceable author statement

(Marelja et al., 2018)

involved_in protein complex oligomerization

inferred from electronic annotation with InterPro:IPR009073, InterPro:IPR036386

(InterPro Project Members, 2004-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

is_active_in mitochondrion

inferred from direct assay

(Uhrigshardt et al., 2013)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

is_active_in mitochondrial matrix

non-traceable author statement

(Marelja et al., 2018)

Gene Group (FlyBase)

HEAT SHOCK PROTEIN 40/DNAJ CO-CHAPERONES

Pathway (FlyBase)

IRON-SULFUR CLUSTER ASSEMBLY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

HEAT SHOCK PROTEIN 40/DNAJ CO-CHAPERONES -: The Heat Shock Protein 40 (Hsp40) family of co-chaperones are essential factors in the Hsp70 chaperone cycle. The Hsp40 family is diverse in size and structure, but a number of them are about 40kDa and have been identified as products of heat shock genes. Their defining feature is the DnaJ or J-domain corresponding to the N-terminal 70 amino acids of the Escherichia coli co-chaperone DnaJ. (Adapted from FBrf0173155).

Pathway (FlyBase)

IRON-SULFUR CLUSTER ASSEMBLY -: Iron-Sulfur (Fe-S) cluster assembly involves the incorporation of iron and sulfur into Fe-S clusters. The assembly begins in the mitochondrial matrix and is mediated by the mitochondrial core ISC complex, which synthesizes a 2Fe-2S cluster from cysteine-derived sulfur and ferrous iron (Fe2+). 2Fe-2S can be assembled into 4Fe-4S clusters or exported into the cytosol where 4Fe-4S clusters can be made. 2Fe-2S and 4Fe-4S are then incorporated into mitochondrial, cytosolic and nuclear apoproteins. Fe-S clusters are mainly involved in electron transfer and storage but can also be directly involved in catalysis or mediate structural support. (Adapted from FBrf0238243.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Hsc20 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 A8JNT7)

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 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Hsc20-RA

FBtr0112440

NM_001104146

927

240

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

Hsc20-PA

FBpp0111355

27.6

240

7.29

A8JNT7

NP_001097616

ABW08549

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)

Comments

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

A8JNT7

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Hsc20 using the Feature Mapper tool.

External Data

Crossreferences

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

Hsc20_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).

-0.61

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

is_active_in mitochondrion

inferred from direct assay

(Uhrigshardt et al., 2013)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Hsc20 in JBrowse

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

View exonic expression by developmental stage for Dmel\Hsc20

View exonic expression by tissue for Dmel\Hsc20

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

5740624/tissue=All

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

FBgn0263606

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0085275

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

FBgn0263606

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 8 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Hsc20

Transgenic constructs containing regulatory region of Hsc20

Aberrations (Deficiencies and Duplications) ( 11 )

Inferred from experimentation ( 11 )

Inferred from location ( 9 )

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

Hsc20¹

lethal (with Df(3L)ED220)

Hsc20^5A3

lethal (with Hsc20^c05018)

Hsc20^f02457

lethal (with Hsc20^f02457)

Hsc20^c05018

lethal | recessive

lethal - all die during third instar larval stage | recessive

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) (5)

Hsap\HSCB

14 of 14

Yes

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) (4)

Rnor\Hscb

14 of 14

Yes

Rnor\Dnaja3

1 of 14

Rnor\Dnajb5

1 of 14

Rnor\Dnajc11

1 of 14

Mus musculus (laboratory mouse) (5)

Mmus\Hscb

13 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (4)

Xtro\hscb

11 of 13

Yes

Xtro\dnajb4

1 of 13

Xtro\dnajb5

1 of 13

Xtro\dnajc8

1 of 13

Danio rerio (Zebrafish) (10)

Drer\hscb

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

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\dnj-15

12 of 14

Yes

Cele\dnj-20

1 of 14

Anopheles gambiae (African malaria mosquito) (2)

Agam\AgaP_AGAP004722

12 of 12

Yes

Agam\AgaP_AGAP010432

1 of 12

Arabidopsis thaliana (thale-cress) (17)

Atha\AT5G06410

12 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

Yes

Atha\AT5G25530

1 of 13

Atha\J11

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\JAC1

9 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (2)

Spom\SPAC144.08

7 of 12

Yes

Spom\SPBC3E7.11c

1 of 12

Escherichia coli (enterobacterium) (2)

Ecol\hscB

9 of 11

Yes

Ecol\djlA

1 of 11

Yes

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Hsc20. 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) (1)

Dph4

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 ( 1 )

Human Ortholog

Disease

Evidence

References

HSCB; HscB mitochondrial iron-sulfur cluster cochaperone

model of sideroblastic anemia 5

IEA

(FlyBase, 2019-)

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?

HSCB; HscB mitochondrial iron-sulfur cluster cochaperone

14 of 14

608142

ANEMIA, SIDEROBLASTIC, 5; SIDBA5

sideroblastic anemia 5

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

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

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0263606

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

IRON-SULFUR CLUSTER ASSEMBLY

External Links

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

External Data

Linkouts

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

Class of Gene

gene

protein_coding_gene

(FlyBase Genome Annotators, 2007)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-44

Cytogenetic map

72D10-72D10

Sequence location

3L:16,233,127..16,234,165 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

72D10-72D10

Left limit from inclusion within Df(3L)st4 (citation unavailable) Right limit from non-inclusion within Df(3L)st-b11 (citation unavailable);

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-44

(FlyBase, 2016)

3-38.5

(Comeron et al., 2012)

3-[43]

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

5065

Hsc20¹/TM2

32672

w^*; Hsc20^5A3 P{neoFRT}80B/TM6B, Tb¹

65694

w¹¹¹⁸; PBac{IT.GAL4}Hsc20^1381-G4/TM6B, Tb¹

16192

y¹ w¹¹¹⁸; PBac{5HPw⁺}Hsc20^B300/TM3, Sb¹ Ser¹

VDRC

v330629

P{VSH330629}attP40

v330630

P{VSH330630}attP40

v342928

P{hsFLP}1, y1 w1118; P{HD_CFD02314}attP40/CyO-GFP

Genomic Clones (19)

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

cDNA Clones (7)

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

MIP14027

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.

FBgn0263606

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

The l(3)72Do complementation group comprises 3 EMS-induced mutant alleles.

(Cooper and Kennison, 2011)

New annotation (CG34246) in release 5.2 of the genome annotation.

(FlyBase Genome Annotators, 2007)

Relationship to Other Genes

Source for database merge of

Source for merge of: l(3)72Do CG34246

(Cooper and Kennison, 2011)

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Hsc20 l(3)72Do

(Uhrigshardt et al., 2013)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (6)

Reported As

Symbol Synonym

CG34246

(Meadows, 2018.10.31, Uhrigshardt et al., 2013, Cooper and Kennison, 2011, FlyBase Genome Annotators, 2007)

Hsc20

(Deo et al., 2024, Vesala et al., 2024, Perlegos et al., 2022, Tsakiri et al., 2019, Clandinin and Owens, 2016-, Chen et al., 2015, Uhrigshardt et al., 2013)

l(3)72Do

(Uhrigshardt et al., 2013, Cooper and Kennison, 2011, Smibert, 2010.11.11)

Name Synonyms

Heat shock protein cognate 20

(Mandilaras et al., 2013)

heat shock protein cognate 20

(Uhrigshardt et al., 2013)

lethal (3) 72Do

Secondary FlyBase IDs

FBgn0005547
FBgn0085275

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.

5740624

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.

ABW08549

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.

A8JNT7

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

A8JNT7

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.

A8JNT7

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

5740624/tissue=All

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

FBgn0263606

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

FBgn0263606

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

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

dme:Dmel_CG34246

MARRVEL_MODEL - MARRVEL (model organism gene)

5740624

Linkouts

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

FBgn0263606

DroID - A comprehensive database of gene and protein interactions.

FBgn0263606

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

Hsc20_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0085275

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0263606

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0263606

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

TC014961

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 (28)

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

-0.61

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