FlyBase Gene Report: Dmel\His3:CG33806

General Information

Symbol

Dmel\His3:CG33806

Species

D. melanogaster

Name

His3:CG33806

Annotation Symbol

CG33806

Feature Type

protein_coding_gene

FlyBase ID

FBgn0053806

Gene Model Status

Current

Stock Availability

None publicly available

Gene Summary

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. (UniProt, P02299)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
UniProtKB
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

39D3-39D3

Sequence location

2L:21,430,255..21,430,783 [+]

Recombination map

2-54

RefSeq locus

NT_033779 REGION:21430255..21430783

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 (10 terms)

Molecular Function (5 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with UniProtKB:Q9V464

(Tyler et al., 1999)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

enables DNA binding

inferred from electronic annotation with InterPro:IPR000164, InterPro:IPR007125

(InterPro Project Members, 2004-)

enables nucleosomal DNA binding

inferred from sequence or structural similarity with UniProtKB:P84243

(Gene Ontology Curators, 2002-)

enables protein heterodimerization activity

inferred from electronic annotation with InterPro:IPR009072

(InterPro Project Members, 2004-)

enables structural constituent of chromatin

inferred from electronic annotation with InterPro:IPR000164

(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 nucleosome assembly

inferred from sequence or structural similarity with UniProtKB:P84243

(Gene Ontology Curators, 2002-)

Cellular Component (4 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

located_in chromatin

inferred from direct assay

(Li et al., 2010)

located_in polytene chromosome

inferred from direct assay

(Rebollar et al., 2006)

part_of RCAF complex

inferred from direct assay

(Tyler et al., 1999)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of nucleosome

inferred from sequence or structural similarity with UniProtKB:P84243

(Gene Ontology Curators, 2002-)

inferred from electronic annotation with InterPro:IPR000164

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the histone H3 family. (P02299)

Protein Signatures (InterPro)

Summaries

Protein Function (UniProtKB)

(UniProt, P02299)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\His3:CG33806 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 P02299)

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

Comments on Gene Model

Gene model reviewed during 5.51

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

His3:CG33806-RA

FBtr0091810

NM_001032118

529

136

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

His3:CG33806-PA

FBpp0091053

15.4

136

11.83

P02299

NP_001027289

AAZ66485

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

Subunit Structure (UniProtKB)

The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA. Interacts (via N-terminus di- or tri-methylated on Lys-10 (H3K9me2/3)) with rhi (via Chromo domain); this interaction is direct (PubMed:24906153, PubMed:25085419). Interacts with Nasp (PubMed:36930688).

(UniProt, P02299)

Post Translational Modification

Phosphorylated at Thr-4 (H3T3ph) by Haspin during mitosis and interphase (PubMed:32750047). Phosphorylation at Ser-11 by aurB/ial during mitosis and meiosis is crucial for chromosome condensation and cell-cycle progression (PubMed:11114889, PubMed:11266459, PubMed:11371341, PubMed:12514098, PubMed:15175259). Phosphorylation at Ser-11 by JIL-1 during interphase is linked to gene activation and restricts the formation of heterochromatin at inappropriate sites. Phosphorylation at Ser-11 is enriched on male X chromosome compared to the autosome (PubMed:11114889, PubMed:11266459, PubMed:11371341, PubMed:12514098, PubMed:15175259).

Acetylation is generally linked to gene activation. Acetylated on Lys-15 during prophase I of meiosis. Phosphorylation of H2A 'Thr-119' is a prerequisite for H3 Lys-15 acetylation. Acetylation on Lys-15 is enriched on male X chromosome compared to the autosome.

Methylation at Lys-5 or Lys-80 is generally associated with active chromatin. Methylation at Lys-80 by gpp occurs at low levels in specific developmental stages and tissues undergoing active cell division, and at highest levels in epidermal cells undergoing differentiation (PubMed:14732680, PubMed:15175259, PubMed:15371351). Tri-methylation at Lys-10 (H3K9me3) is generally associated with transcriptional repression (Probable). Tri-methylation at Lys-10 (H3K9me3) is partly stimulated at specific chromatin loci by homologous piRNAs (PubMed:25085419). Tri-methylation at Lys-10 (H3K9me3) stimulates recruitment of the Rhino-Deadlock-Cutoff (RDC) complex to promote piRNA biogenesis (PubMed:24906153, PubMed:25085419).

(UniProt, P02299)

Crossreferences

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

PDB - An information portal to biological macromolecular structures

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

P02299

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\His3:CG33806 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).

NA

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 chromatin

inferred from direct assay

(Li et al., 2010)

located_in polytene chromosome

inferred from direct assay

(Rebollar et al., 2006)

part_of RCAF complex

inferred from direct assay

(Tyler et al., 1999)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\His3:CG33806 in JBrowse

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

View exonic expression by developmental stage for Dmel\His3:CG33806

View exonic expression by tissue for Dmel\His3:CG33806

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

3771959/tissue=All

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

FBgn0053806

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0053806

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

FBgn0053806

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 0 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of His3:CG33806

Transgenic constructs containing regulatory region of His3:CG33806

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 11 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

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\H3C15

11 of 14

Yes

Hsap\H3-2

6 of 14

Yes

6 of 14

6 of 14

5 of 14

5 of 14

3 of 14

3 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 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) (14)

Rnor\H3c13

10 of 14

Yes

6 of 14

6 of 14

6 of 14

4 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (18)

Mmus\H3c15

10 of 14

Yes

6 of 14

6 of 14

4 of 14

3 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

Yes

Mmus\Hfe

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (6)

Xtro\LOC100486720

8 of 13

Yes

Xtro\h3-3a

4 of 13

Xtro\cenpa

3 of 13

Yes

Xtro\LOC100494884

3 of 13

Xtro\h3c13

1 of 13

Xtro\LOC100487756

1 of 13

Danio rerio (Zebrafish) (19)

Drer\zgc:113983

11 of 14

Yes

Drer\h3f3d

6 of 14

Drer\si:ch211-113a14.27

6 of 14

Yes

Drer\hist2h3ca1

4 of 14

Drer\cenpa

3 of 14

Yes

Drer\h3f3a

2 of 14

Drer\h3f3c

2 of 14

Drer\hist2h3c

2 of 14

Drer\si:ch1073-429i10.3

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Drer\si:ch1073-153i20.2

1 of 14

Drer\si:dkey-108k21.25

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (24)

Cele\his-25

10 of 14

Yes

7 of 14

7 of 14

5 of 14

5 of 14

Yes

Cele\his-72

5 of 14

Cele\cpar-1

2 of 14

Cele\F20D6.9

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

Yes

Anopheles gambiae (African malaria mosquito) (11)

Agam\AgaP_AGAP005025

9 of 12

Yes

6 of 12

5 of 12

4 of 12

2 of 12

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (14)

Atha\AT5G10390

10 of 13

Yes

7 of 13

7 of 13

5 of 13

5 of 13

5 of 13

Yes

Atha\AT5G12910

4 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

Saccharomyces cerevisiae (Brewer's yeast) (3)

Scer\HHT2

9 of 13

Yes

Scer\CSE4

3 of 13

Yes

Scer\HHT1

2 of 13

Schizosaccharomyces pombe (Fission yeast) (4)

Spom\hht2

9 of 12

Yes

Spom\cnp1

3 of 12

Yes

Spom\hht1

2 of 12

Spom\hht3

2 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:His3:CG33806. 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) (25)

His3.3A

11 of 13

cid

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

3 of 13

2 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?

H3C15; H3 clustered histone 15

11 of 14

H3-7; H3.7 histone (putative)

6 of 14

H3-3B; H3.3 histone B

6 of 14

601058

BRYANT-LI-BHOJ NEURODEVELOPMENTAL SYNDROME 2; BRYLIB2

H3C4; H3 clustered histone 4

6 of 14

602811

H3-4; H3.4 histone, cluster member

5 of 14

5 of 14

3 of 14

3 of 14

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

Subunit Structure (UniProtKB)

(UniProt, P02299 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0053806

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene_subarray_member

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-54

Cytogenetic map

39D3-39D3

Sequence location

2L:21,430,255..21,430,783 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

39D3-39D3

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-54

(FlyBase, 2016)

2-54.5

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (0)

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

Genomic Clones (36)

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

cDNA Clones (1)

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.

FBgn0053806

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0053806

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

New annotation (CG33806) in release 4.2 of the genome annotation.

(FlyBase Genome Annotators, 2005)

Relationship to Other Genes

Source for database merge of

Member gene of

His3

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (2)

Reported As

Symbol Synonym

CG33806

His3:CG33806

(Kong et al., 2010)

Name Synonyms

His3:CG33806

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 43 )

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.

3771959

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.

AAZ66485

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.

P02299

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

P02299

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.

P02299

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

3771959/tissue=All

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

FBgn0053806

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

FBgn0053806

FlyMine - An integrated database for Drosophila genomics

FBgn0053806

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

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

dme:Dmel_CG33806

MARRVEL_MODEL - MARRVEL (model organism gene)

3771959

PDB - An information portal to biological macromolecular structures

Linkouts

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

FBgn0053806

DroID - A comprehensive database of gene and protein interactions.

FBgn0053806

DRSC - Results frm RNAi screens

FBgn0053806

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0053806

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0053806

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

TC016050

References (11)

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

NA

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