FB2026_01 , released March 12, 2026
FB2026_01 , released March 12, 2026
Gene: Dmel\Elp3
Open Close
General Information
Symbol
Dmel\Elp3
Species
D. melanogaster
Name
Elongator complex protein 3
Annotation Symbol
CG15433
Feature Type
FlyBase ID
FBgn0031604
Gene Model Status
Stock Availability
Enzyme Name (EC)
tRNA carboxymethyluridine synthase (2.3.1.311)
histone acetyltransferase (2.3.1.48)
Gene Summary
Elongator complex protein 3 (Elp3) encodes a Lysine (K) acetyltransferase (KAT) that resides primarily in the cytoplasm of neurons. It acetylates the product of brp in an opposite reaction to the product of HDAC6 to regulate T-bar morphology and function, and unlike most KATs it does not acetylate histones. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)
Also Known As

Elongator protein 3

Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
2-12
RefSeq locus
NT_033779 REGION:4444732..4446765
Sequence
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
Gene Ontology (GO) Annotations (25 terms)
Molecular Function (6 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
Biological Process (14 terms)
Terms Based on Experimental Evidence (11 terms)
CV Term
Evidence
References
involved_in hemopoiesis
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
involved_in long-term memory
inferred from mutant phenotype
inferred from mutant phenotype
involved_in sleep
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
involved_in tRNA modification
inferred from mutant phenotype
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
inferred from sequence or structural similarity with UniProtKB:Q9H9T3
inferred from sequence or structural similarity with UniProtKB:Q1ZXC6
Cellular Component (5 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
located_in cytoplasm
inferred from direct assay
located_in cytosol
inferred from direct assay
located_in synapse
inferred from direct assay
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
is_active_in cytoplasm
inferred from biological aspect of ancestor with PANTHER:PTN000123913
located_in cytoplasm
inferred from sequence or structural similarity with UniProtKB:Q9H9T3
inferred from biological aspect of ancestor with PANTHER:PTN000123915
is_active_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000123915
located_in nucleus
inferred from sequence or structural similarity with UniProtKB:Q9H9T3
Protein Family (UniProt)
Belongs to the ELP3 family. (Q9VQZ6)
Catalytic Activity (EC/Rhea)
protein-lysine-acetyltransferase activity
L-lysyl-[protein] + acetyl-CoA = N(6)-acetyl-L-lysyl-[protein] + CoA + H(+) (2.3.1.48)
RHEA 45948: tRNA uridine(34) acetyltransferase activity
uridine(34) in tRNA + acetyl-CoA + S-adenosyl-L-methionine + H2O = 5-(carboxymethyl)uridine(34) in tRNA + 5'-deoxyadenosine + L-methionine + CoA + 2 H(+) (2.3.1.311)
RHEA 61020:
Summaries
Gene Snapshot
Elongator complex protein 3 (Elp3) encodes a Lysine (K) acetyltransferase (KAT) that resides primarily in the cytoplasm of neurons. It acetylates the product of brp in an opposite reaction to the product of HDAC6 to regulate T-bar morphology and function, and unlike most KATs it does not acetylate histones. [Date last reviewed: 2019-03-07]
Gene Group (FlyBase)
ELONGATOR HOLOENZYME COMPLEX -
Elongator is a conserved 0.8-MDa protein complex composed of six subunits, Elp1-6, comprising two copies of each subunit arranged in two subcomplexes: Elp123 and Elp456. The catalytic subunit Elp3 harbours a conserved lysine acetyl-transferase (KAT) and a S-adenosyl-L-methionine (SAM) domain, which mediate acetylation and methylation, respectively. The main function of Elongator is the regulation of translation through targeted transfer-RNA modification. (Adapted from FBrf0254982.)
UNCLASSIFIED PROTEIN-LYSINE ACETYLTRANSFERASES -
This group comprises lysine N-acetyltransferases that do not classify under other groups in FlyBase.
Protein Function (UniProtKB)
Catalytic tRNA acetyltransferase subunit of the elongator complex, which is required for multiple tRNA modifications, including mcm5U (5-methoxycarbonylmethyl uridine), mcm5s2U (5-methoxycarbonylmethyl-2-thiouridine), and ncm5U (5-carbamoylmethyl uridine) (PubMed:36302967). In the elongator complex, acts as a tRNA uridine(34) acetyltransferase by mediating formation of carboxymethyluridine in the wobble base at position 34 in tRNAs (PubMed:36302967). Can acetylate proteins including histone H3 and brp/bruchpilot but is not a major acetyltransferase of tubulin; acetylation of brp plays a role in maintaining the organization of the presynaptic active zone (PubMed:22153374). Binding by the elongator complex stabilizes microtubules and promotes their growth (PubMed:36302967). This induces central spindle asymmetry, promoting polarized signaling endosome trafficking during asymmetric cell division and cell fate assignation of sensory organ precursor cells (PubMed:36302967). Required in both motoneurons and muscles to maintain the organization of presynaptic active zones and postsynaptic glutamate receptor clusters (PubMed:22153374). Plays a role in the control of synaptic bouton expansion (PubMed:20626565). Required for larval development (PubMed:21288872). Involved in protein synthesis-dependent long-term memory formation, probably as part of the elongator complex (PubMed:29545390).
(UniProt, Q9VQZ6)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Elp3 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 Q9VQZ6)

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 5.47

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0077439
1863
552
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
FBpp0077129
62.8
552
8.79
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)

Component of the elongator complex composed of Elp1, Elp2, Elp3, Elp4, Elp5 and Elp6 (PubMed:36302967). The elongator complex associates with and stabilizes microtubules; efficient interaction requires the full complex (PubMed:36302967).

(UniProt, Q9VQZ6)
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Elp3 using the Feature Mapper tool.

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

1.16

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
organism

Comment: maternally deposited

Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in cytoplasm
inferred from direct assay
located_in cytosol
inferred from direct assay
located_in synapse
inferred from direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Elp3 in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 11-12
  • Stages(s) 13-16
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 13 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 15 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Elp3
Transgenic constructs containing regulatory region of Elp3
Aberrations (Deficiencies and Duplications) ( 2 )
Inferred from experimentation ( 2 )
Gene partially disrupted in
Inferred from location ( 3 )
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
Sterility
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (2)
14 of 14
Yes
Yes
 
1  
1 of 14
No
Yes
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (1)
14 of 14
Yes
Yes
Mus musculus (laboratory mouse) (1)
13 of 14
Yes
Yes
Xenopus tropicalis (Western clawed frog) (2)
11 of 13
Yes
Yes
1 of 13
No
No
Danio rerio (Zebrafish) (2)
14 of 14
Yes
Yes
1 of 14
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
14 of 14
Yes
Yes
Anopheles gambiae (African malaria mosquito) (1)
12 of 12
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
13 of 13
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
13 of 13
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
12 of 12
Yes
Yes
Escherichia coli (enterobacterium) (1)
5 of 11
Yes
Yes
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:Elp3. Refer to their site for version information.
Paralogs
Paralogs (via DIOPT v9.1)
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?
    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.
    Dmel gene
    Ortholog showing functional complementation
    Supporting References
    Interactions
    Summary of Physical Interactions
    Summary of Genetic Interactions
    Interaction Browsers

    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    External Data
    Subunit Structure (UniProtKB)
    Component of the elongator complex composed of Elp1, Elp2, Elp3, Elp4, Elp5 and Elp6 (PubMed:36302967). The elongator complex associates with and stabilizes microtubules; efficient interaction requires the full complex (PubMed:36302967).
    (UniProt, Q9VQZ6 )
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    FlyBase
    External Links
    FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
    External Data
    Linkouts
    Class of Gene
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2L
    Recombination map
    2-12
    Cytogenetic map
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    24F2-24F2
    Limits computationally determined from genome sequence between P{lacW}Tps1k08903&P{EP}morgueEP1184 and P{lacW}l(2)k10004k10004&P{EP}CG3036EP963
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (12)
    Genomic Clones (23)
    cDNA Clones (6)
     

    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.

    cDNA Clones, End Sequenced (ESTs)
    BDGP DGC clones
    Other clones
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    Antibody Information
    Laboratory Generated Antibodies
    Commercially Available Antibodies
     
    Cell Line Information
    Publicly Available Cell Lines
     
      Other Stable Cell Lines
       
      Other Comments
      Relationship to Other Genes
      Source for database merge of
      Additional comments
      Nomenclature History
      Source for database identify of

      Source for identity of: Elp3 CG15433

      Nomenclature comments
      Etymology
      Synonyms and Secondary IDs (14)
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      Study result (0)
      Result
      Result Type
      Title
      External Crossreferences and Linkouts ( 37 )
      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.
      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.
      UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
      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.
      BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
      DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
      EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
      FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
      FlyMine - An integrated database for Drosophila genomics
      KEGG Genes - Molecular building blocks of life in the genomic space.
      MARRVEL_MODEL - MARRVEL (model organism gene)
      Linkouts
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
      DroID - A comprehensive database of gene and protein interactions.
      DRSC - Results frm RNAi screens
      Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
      FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
      FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
      FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
      Flygut - An atlas of the Drosophila adult midgut
      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
      MIST (protein-protein) - An integrated Molecular Interaction Database
      References (71)