FlyBase Gene Report: Dmel\Ssrp

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)

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)

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 GBrowse view of Dmel\Ssrp or 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

Comments on Gene Model

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

Gene model reviewed during 5.52

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

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

RefSeq ID

GenBank

Ssrp-PA

FBpp0072151

81.5

723

5.31

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

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

Gene Ontology (13 terms)

Molecular Function (5 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

nucleosomal DNA binding

inferred from direct assay

(Tsunaka et al., 2009)

nucleosome binding

inferred from direct assay

(Shimojima et al., 2003)

protein binding

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

(Shimojima et al., 2003)

protein self-association

inferred from direct assay

(Tsunaka et al., 2009)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

histone binding

inferred from biological aspect of ancestor with PANTHER:PTN002492356

(assigned by GO_Central )

(Gaudet et al., 2011)

nucleosome binding

inferred from biological aspect of ancestor with PANTHER:PTN002492356

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (5 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

negative regulation of protein phosphorylation