FlyBase Gene Report: Dmel\Ssrp

General Information

Symbol

Dmel\Ssrp

Species

D. melanogaster

Name

Structure specific recognition protein

Annotation Symbol

CG4817

Feature Type

protein_coding_gene

FlyBase ID

FBgn0010278

Gene Model Status

Current

Stock Availability

17 publicly available

Gene Summary

Component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. During transcription elongation the FACT complex acts as a histone chaperone that both destabilizes and restores nucleosomal structure. It facilitates the passage of RNA polymerase II and transcription by promoting the dissociation of one histone H2A-H2B dimer from the nucleosome, then subsequently promotes the reestablishment of the nucleosome following the passage of RNA polymerase II. Binds specifically to single-stranded DNA and RNA with highest affinity for nucleotides G and U. The FACT complex is required for expression of Hox genes. (UniProt, Q05344)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

SSRP1, dSSRP1

Key Links

Genomic Location

Cytogenetic map

60A2-60A2

Sequence location

2R:23,806,361..23,809,004 [-]

Recombination map

2-105

RefSeq locus

NT_033778 REGION:23806361..23809004

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 (17 terms)

Molecular Function (7 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

enables chromo shadow domain binding

inferred from mutant phenotype with UniProtKB:P05205

(Kwon et al., 2010)

enables nucleosomal DNA binding

inferred from direct assay

(Tsunaka et al., 2009)

enables nucleosome binding

inferred from direct assay

(Shimojima et al., 2003)

enables protein binding

inferred from physical interaction with FLYBASE:Trl; FB:FBgn0013263

(Shimojima et al., 2003)

inferred from physical interaction with UniProtKB:P05205

(Kwon et al., 2010)

enables protein heterodimerization activity

inferred from physical interaction with UniProtKB:Q8IRG6

(Kwon et al., 2010, Tsunaka et al., 2009)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables DNA binding

inferred from electronic annotation with InterPro:IPR000969

(InterPro Project Members, 2004-)

enables histone binding

inferred from biological aspect of ancestor with PANTHER:PTN002492356

(GO Reference Genome Project, 2011-)

enables nucleosome binding

inferred from biological aspect of ancestor with PANTHER:PTN002492356

(GO Reference Genome Project, 2011-)

Biological Process (4 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

involved_in follicle cell of egg chamber development

inferred from mutant phenotype

(Jia et al., 2015)

involved_in negative regulation of protein phosphorylation

inferred from mutant phenotype

(Dopie et al., 2015)

involved_in positive regulation of actin filament polymerization

inferred from mutant phenotype

(Dopie et al., 2015)

involved_in regulation of chromatin organization

inferred from mutant phenotype

(Shimojima et al., 2003)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in regulation of chromatin organization

inferred from biological aspect of ancestor with PANTHER:PTN002912100

(GO Reference Genome Project, 2011-)

Cellular Component (6 terms)

Terms Based on Experimental Evidence (6 terms)

CV Term

Evidence

References

located_in cytosol

inferred from direct assay

(Tsunaka et al., 2009)

part_of FACT complex

inferred from direct assay

(Tsunaka et al., 2009)

inferred from direct assay

(Kwon et al., 2010)

located_in nucleolus

inferred from direct assay

(Swenson et al., 2016)

located_in nucleus

inferred from direct assay

(Tsunaka et al., 2009)

colocalizes_with polytene chromosome interband

inferred from direct assay

(Kwon et al., 2010)

colocalizes_with polytene chromosome puff

inferred from direct assay

(Kwon et al., 2010)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

part_of FACT complex

inferred from biological aspect of ancestor with PANTHER:PTN002492356

(GO Reference Genome Project, 2011-)

located_in nucleus

inferred from electronic annotation with InterPro:IPR000969

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

FACT COMPLEX

HIGH MOBILITY GROUP BOX TRANSCRIPTION FACTORS

Protein Family (UniProt)

Belongs to the SSRP1 family. (Q05344)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

FACT COMPLEX -: FACT (facilitates chromatin transcription) is a heterodimer that destabilizes interactions between the H2A/H2B dimer and the H3/H4 tetramer of nucleosomes. FACT is involved in multiple processes such as transcription elongation, DNA replication and repair. (Adapted from FBrf0208591).
HIGH MOBILITY GROUP BOX TRANSCRIPTION FACTORS -: The High mobility group box (HMGB) transcription factors are sequence-specific DNA binding proteins that regulate transcription. The HMGB proteins have a characteristic L-shaped HMGB domain of about 80 amino acid residues, which binds the DNA minor groove and induce DNA bending. The HMGB domains are found in one or more copies and are involved in the regulation of DNA-dependent processes such as transcription, replication and chromatin remodeling. (Adapted from FBrf0194706, FBrf0108466, PMID:24086078 and PMID:23153957).

Protein Function (UniProtKB)

(UniProt, Q05344)

Summary (Interactive Fly)

transcription factor - along with Dre4 forms a protein complex, FACT, that facilates GAGA factor directed chromatin remodeling

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Ssrp 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 Q05344)

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

PDB - An information portal to biological macromolecular structures

1WXL

Comments on Gene Model

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

Gene model reviewed during 5.52

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Ssrp-RA

FBtr0072242

NM_079106

2507

723

Additional Transcript Data and Comments

Reported size (kB)

2.6 (northern blot)

(Hsu et al., 1993)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Ssrp-PA

FBpp0072151

81.5

723

5.31

Q05344

NP_523830

AAF47064

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)

723 (aa); 81 (kD)

(Bruhn et al., 1993, Hsu et al., 1993)

Comments

External Data

Subunit Structure (UniProtKB)

Component of the FACT complex, a stable heterodimer of dre4/spt16 and Ssrp. Interacts with CHD1 and TRL/GAGA.

(UniProt, Q05344)

Crossreferences

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

PDB - An information portal to biological macromolecular structures

1WXL

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q05344

Mapped Features

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

External Data

Crossreferences

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

Ssrp_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).

0.14

Transcript Expression

No Assay Recorded

Stage

Tissue/Position (including subcellular localization)

Reference

oogenesis & adult stage | female

ovary

(Hsu et al., 1993)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism | intense | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

central brain primordium

(Fisher et al., 2012)

organism | ubiquitous

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

embryonic hindgut

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

larval ventral nerve cord

(Fisher et al., 2012)

adult stage & oogenesis

nurse cell

(Hsu et al., 1993)

Additional Descriptive Data

Ssrp transcripts are found in ovaries and are abundant throughout oogenesis. Transcripts are also found in nurse cells and the nurse cell expression is highest during stages S10-S12. Transcript levels remain high during embryogenesis but drop during larval stages.

(Hsu et al., 1993)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Ssrp protein is localized to the nucleus and is particularly abundant in the nucleolus.

(Hsu et al., 1993)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytosol

inferred from direct assay

(Tsunaka et al., 2009)

part_of FACT complex

inferred from direct assay

(Tsunaka et al., 2009)

inferred from direct assay

(Kwon et al., 2010)

located_in nucleolus

inferred from direct assay

(Swenson et al., 2016)

located_in nucleus

inferred from direct assay

(Tsunaka et al., 2009)

colocalizes_with polytene chromosome interband

inferred from direct assay

(Kwon et al., 2010)

colocalizes_with polytene chromosome puff

inferred from direct assay

(Kwon et al., 2010)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Ssrp in JBrowse

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

View exonic expression by developmental stage for Dmel\Ssrp

View exonic expression by tissue for Dmel\Ssrp

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

FBgn0010278

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

37767/tissue=All

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

FBgn0010278

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0010278

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

FBgn0010278

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG4817

Flygut - An atlas of the Drosophila adult midgut

FBgn0010278

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 13 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Ssrp

Transgenic constructs containing regulatory region of Ssrp

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

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, with Scer\GAL4^insc-Mz1407

Ssrp^GD12795

lethal, with Scer\GAL4^Mef2.PR

Ssrp^GD12795

lethal - all die before end of pupal stage, with Scer\GAL4^pnr-MD237

Ssrp^GD12795

lethal - all die before end of second instar larval stage

Ssrp^G2947

lethal - all die during pharate adult stage, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

viable, with Scer\GAL4^tin.CΔ4

Ssrp^GD12795

Other Phenotypes

Allele

abnormal neuroanatomy | larval stage, with Scer\GAL4^insc-Mz1407

Ssrp^GD12795

decreased cell number | larval stage | somatic clone

Ssrp^G2947

decreased cell number | larval stage | somatic clone, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

decreased cell size | larval stage

Ssrp^G2947

decreased cell size | larval stage, with Scer\GAL4^unspecified

Ssrp^JF02120

decreased cell size | larval stage, with Scer\GAL4^wor.PU

Ssrp^JF02120

decreased occurrence of cell division | larval stage

Ssrp^G2947

decreased occurrence of cell division | larval stage, with Scer\GAL4^wor.PU

Ssrp^JF02120

decreased rate of adult locomotory behavior, with Scer\GAL4^wor.PU

Ssrp^JF02120

decreased size | larval stage, with Scer\GAL4^unspecified

Ssrp^JF02120

decreased size | larval stage | somatic clone

Ssrp^G2947

decreased size | larval stage | somatic clone, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

increased cell number | adult stage, with Scer\GAL4^wor.PU

Ssrp^JF02120

increased cell number | P-stage, with Scer\GAL4^wor.PU

Ssrp^JF02120

short lived, with Scer\GAL4^wor.PU

Ssrp^JF02120

some die during pupal stage, with Scer\GAL4^pnr-MD237

Ssrp^GD12795

visible, with Scer\GAL4^pnr-MD237

Ssrp^GD12795

visible | male limited, with Scer\GAL4^Bx-MS1096

Ssrp^{UAS.ORF.GW.Tag:HA}

Phenotype manifest in

Allele

adult head capsule, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

antenna, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

eye, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

eye-antennal disc, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

ganglion mother cell | larval stage, with Scer\GAL4^insc-Mz1407

Ssrp^GD12795

larval brain, with Scer\GAL4^unspecified

Ssrp^JF02120

larval central brain, with Scer\GAL4^wor.PU

Ssrp^JF02120

larval neuroblast

Ssrp^G2947

larval neuroblast, with Scer\GAL4^unspecified

Ssrp^JF02120

larval neuroblast, with Scer\GAL4^wor.PU

Ssrp^JF02120

larval neuroblast | larval stage, with Scer\GAL4^insc-Mz1407

Ssrp^GD12795

larval neuroblast | somatic clone, with Scer\GAL4^Act5C.PI

Ssrp^JF02120

mesonotum, with Scer\GAL4^pnr-MD237

Ssrp^GD12795

neuroblast | adult stage | ectopic, with Scer\GAL4^wor.PU

Ssrp^JF02120

neuroblast | P-stage | increased number, with Scer\GAL4^wor.PU

Ssrp^JF02120

sarcomere, with Scer\GAL4^Mef2.PR

Ssrp^GD12795

wing | male limited, with Scer\GAL4^Bx-MS1096

Ssrp^{UAS.ORF.GW.Tag:HA}

Z disc, with Scer\GAL4^Mef2.PR

Ssrp^GD12795

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) (32)

Hsap\SSRP1

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

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

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) (23)

Rnor\Ssrp1

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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (13)

Mmus\Ssrp1

12 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

Xenopus tropicalis (Western clawed frog) (26)

Xtro\ssrp1

8 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

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (17)

Drer\ssrp1b

13 of 14

Yes

Drer\ssrp1a

12 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

Caenorhabditis elegans (Nematode, roundworm) (13)

Cele\hmg-3

14 of 14

Yes

Cele\hmg-4

14 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

Anopheles gambiae (African malaria mosquito) (15)

Agam\AgaP_AGAP012335

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

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (11)

Atha\HMG

13 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (7)

Scer\POB3

11 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\pob3

11 of 12

Yes

Spom\mug183

1 of 12

Yes

Spom\nhp6

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Ssrp. 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)

3 of 13

3 of 13

2 of 13

2 of 13

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 ( 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?

SSRP1; structure specific recognition protein 1

13 of 14

604328

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

Ssrp

comigration in non denaturing gel electrophoresis, molecular weight estimation by staining, nuclear magnetic resonance

(Hashimoto et al., 2013, Tsunaka et al., 2009)

Ssrp - Cenp-C

anti tag coimmunoprecipitation, peptide massfingerprinting

(Lipinszki et al., 2015)

Ssrp - Dek

experimental knowledge based

(Guruharsha et al., 2011)

Ssrp - HP1b

anti bait coimmunoprecipitation, anti tag western blot, tandem affinity purification, multidimensional protein identification technology, western blot, pull down

(Lee et al., 2019, Kwon et al., 2010)

Ssrp - HP1c

pull down, anti tag western blot, anti tag coimmunoprecipitation, tandem affinity purification, multidimensional protein identification technology, western blot, anti bait coimmunoprecipitation

(Lee et al., 2019, Kwon et al., 2010)

Ssrp - Spt5

anti bait coimmunoprecipitation, western blot

(Saunders et al., 2003)

Ssrp - Su(var)205

anti bait coimmunoprecipitation, western blot, pull down, anti tag western blot, anti tag coimmunoprecipitation, tandem affinity purification, multidimensional protein identification technology

(Lee et al., 2019, Kwon et al., 2010)

Ssrp - Trl

anti tag coimmunoprecipitation, peptide massfingerprinting, western blot, pull down, anti tag western blot

(Nakayama et al., 2012, Shimojima et al., 2003)

Ssrp - cal1

anti bait coimmunoprecipitation, western blot, anti tag coimmunoprecipitation, Identification by mass spectrometry, pull down, autoradiography

(Chen et al., 2015)

Ssrp - cid

anti tag coimmunoprecipitation, western blot, peptide massfingerprinting

(Boltengagen et al., 2016)

Ssrp - dre4

pull down, autoradiography, molecular weight estimation by staining, experimental knowledge based, anti bait coimmunoprecipitation, anti tag western blot, western blot

(Chen et al., 2015, Guruharsha et al., 2011, Kwon et al., 2010, Tsunaka et al., 2009, Shimojima et al., 2003)

Ssrp - piwi

anti tag coimmunoprecipitation, Identification by mass spectrometry, western blot, anti bait coimmunoprecipitation

(Chen et al., 2025)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

suppressible

(Lou et al., 2024)

suppressible

(Lou et al., 2024)

suppressible

(Lou et al., 2024)

suppressible

(Lou et al., 2024)

suppressible

(Lou et al., 2024)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

piwi

suppressible

Ssrp

(Chen et al., 2025)

External Data

Subunit Structure (UniProtKB)

Component of the FACT complex, a stable heterodimer of dre4/spt16 and Ssrp. Interacts with CHD1 and TRL/GAGA.

(UniProt, Q05344 )

Linkouts

BioGRID - A database of protein and genetic interactions.

63363

DroID - A comprehensive database of gene and protein interactions.

FBgn0010278

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

37767

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

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

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-105

Cytogenetic map

60A2-60A2

Sequence location

2R:23,806,361..23,809,004 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

60A2-60A2

Limits computationally determined from genome sequence between P{EP}egl^EP938 and P{lacW}eIF6^k13214

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

60A1-60A4

(Bruhn, 1992.9.16)

60A1-60A4

(determined by in situ hybridisation)

(Bruhn et al., 1993, Hsu et al., 1993)

Experimentally Determined Recombination Data

Location

2-105

(FlyBase, 2016)

2-109.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (17)

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

Bloomington

26222

y¹ v¹; P{TRiP.JF02120}attP2

80873

y¹, v¹; P{TKO.GS04777}attP40

67389

y¹ w^*; PBac{Ssrp-GFP.FPTB}VK00033

29686

y¹ w^*; P{EP}Ssrp^G2947/CyO

80753

y¹ sc^* v¹ sev²¹; P{TOE.GS02137}attP40

41719

y¹ sc^* v¹ sev²¹; P{TRiP.HMS02285}attP2

FlyORF

F001903

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

4817R-1

4817R-2

v44343

w¹¹¹⁸; P{GD12795}v44343

v44344

w¹¹¹⁸; P{GD12795}v44344

v318267

PBac{fTRG00913.sfGFP-TVPTBF}VK00033

More stocks available...

Genomic Clones (21)

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

cDNA Clones (134)

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

SD06504

Other clones

FI07619

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.

FBgn0010278

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0010278

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Lou et al., 2024, Tettey et al., 2019, Mazina et al., 2018, Shimojima et al., 2003, Hsu et al., 1993)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

The FACT complex (FAcilitates Chromatin Transcription) containing dre4 and Ssrp has a crucial role in the modulation of chromatin structure for the regulation of gene expression.

(Shimojima et al., 2003)

Drosophila Ssrp identified by sequence similarity to human Ssrp gene.

(Bruhn et al., 1993)

cDNA encoding a developmentally regulated high-mobility-group (HMG) box-containing protein was isolated: the encoded protein binds single stranded DNA and RNA, rather than the expected structured DNA.

(Hsu et al., 1993)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Ssrp CG4817

(Zhang, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (13)

Reported As

Symbol Synonym

CG4817

(National Institute of Genetics Fly Stocks, 2022-, Boltengagen et al., 2016, Hosono et al., 2015, Ni et al., 2011.7.19, Ni et al., 2010.12.1, Perkins et al., 2009.3.31)

Cf5

DssRP

(Hsu et al., 1993)

SSRP

(Andersen et al., 2010, Hsu, 1993)

SSRP1

(Aoki et al., 2020, Bhargava et al., 2020, Mazina et al., 2017, Lipinszki et al., 2015, Hashimoto et al., 2013, Nakayama et al., 2012, Polo and Almouzni, 2006, Saunders et al., 2003, Kelley et al., 1999, Soullier et al., 1999, Bruhn, 1992.9.16)

dSSRP

(Wisniewski et al., 1999)

dSSRP1

(Lee et al., 2019, Kwon et al., 2010, Tsunaka et al., 2009, Nakayama et al., 2007, Lehmann, 2004, Shimojima et al., 2003)

dSsrp

(Yokoyama et al., 2007)

ssrp

(Neumüller et al., 2013, Levine and Begun, 2008)

Name Synonyms

Chorion factor

Structure specific recognition protein

structure-specific recognition protein

(Pedersen et al., 2008)

Secondary FlyBase IDs

FBgn0005644

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 51 )

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.

37767

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.

Q05344

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

Q05344

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.

Q05344

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0010278

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

37767/tissue=All

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

FBgn0010278

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

FBgn0010278

FlyMine - An integrated database for Drosophila genomics

FBgn0010278

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

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

dme:Dmel_CG4817

MARRVEL_MODEL - MARRVEL (model organism gene)

37767

PDB - An information portal to biological macromolecular structures

1WXL

Linkouts

BioGRID - A database of protein and genetic interactions.

63363

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

FBgn0010278

DroID - A comprehensive database of gene and protein interactions.

FBgn0010278

DRSC - Results frm RNAi screens

FBgn0010278

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

Ssrp_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0010278

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0010278

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG4817

Flygut - An atlas of the Drosophila adult midgut

FBgn0010278

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

FBgn0010278

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

TC012866

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

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

37767

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

References (118)

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

0.14

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