FB2022_02, released March 29, 2022

Gene: Dmel\Lon

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General Information
Symbol
Dmel\Lon
Species
D. melanogaster
Name
Lon protease
Annotation Symbol
CG8798
Feature Type
protein_coding_gene
FlyBase ID
FBgn0036892
Gene Model Status
Current
Stock Availability
11 publicly available
Gene Summary
Lon protease (Lon) encodes a conserved ATP-stimulated serine protease. It is encoded in the nucleus and targeted to the mitochondrial matrix, where it contributes to mitochondrial protein turnover. [Date last reviewed: 2018-10-25] (FlyBase Gene Snapshot)
All Summaries
Key Links
Genomic Location
Cytogenetic map
76B9-76B9
Sequence location
Recombination map
3-45
RefSeq locus
NT_037436 REGION:19607857..19612199
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (13 terms)
Molecular Function (6 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables serine hydrolase activity
inferred from high throughput direct assay
(Kumar et al., 2021)
Terms Based on Predictions or Assertions (5 terms)
CV Term
Evidence
References
enables ATP binding
inferred from electronic annotation with InterPro:IPR003959, InterPro:IPR004815, InterPro:IPR027065
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
enables ATP hydrolysis activity
inferred from electronic annotation with InterPro:IPR003959
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
enables ATP-dependent peptidase activity
inferred from biological aspect of ancestor with PANTHER:PTN002464028
(assigned by GO_Central )
(Gaudet et al., 2011)
enables serine-type endopeptidase activity
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
enables single-stranded DNA binding
inferred from biological aspect of ancestor with PANTHER:PTN000005479
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (4 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
involved_in mitochondrion organization
inferred from mutant phenotype
(Matsushima et al., 2010)
involved_in positive regulation of protein catabolic process
inferred from mutant phenotype
(Thomas et al., 2014)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in chaperone-mediated protein complex assembly
inferred from biological aspect of ancestor with PANTHER:PTN000005479
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in mitochondrion organization
inferred from biological aspect of ancestor with PANTHER:PTN000005479
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in protein quality control for misfolded or incompletely synthesized proteins
inferred from biological aspect of ancestor with PANTHER:PTN002464028
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in mitochondrion
inferred from direct assay
(Matsushima et al., 2010)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
is_active_in mitochondrial matrix
inferred from biological aspect of ancestor with PANTHER:PTN000005479
(assigned by GO_Central )
(Gaudet et al., 2011)
located_in peroxisome
inferred from sequence or structural similarity with HGNC:20598
(Faust et al., 2012)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the peptidase S16 family. (Q7KUT2)
Protein Signatures (InterPro)
Summaries
Gene Snapshot
Lon protease (Lon) encodes a conserved ATP-stimulated serine protease. It is encoded in the nucleus and targeted to the mitochondrial matrix, where it contributes to mitochondrial protein turnover. [Date last reviewed: 2018-10-25]
Gene Group (FlyBase)
ATP-DEPENDENT SERINE ENDOPEPTIDASES -
ATP-dependent serine endopeptidases belong to MEROPS families S14 and S16 and catalyse the hydrolysis of proteins in the presence of ATP. They include the peptidase subunit of the Clp complex (S14 family) and the Lon protease (S16 family), which mediate the selective degradation of polypeptides in the mitochondrial matrix. (Adapted from FBrf0236413 and FBrf0240421.)
Protein Function (UniProtKB)
ATP-dependent serine protease that mediates the selective degradation of misfolded, unassembled or oxidatively damaged polypeptides as well as certain short-lived regulatory proteins in the mitochondrial matrix. May also have a chaperone function in the assembly of inner membrane protein complexes. Participates in the regulation of mitochondrial gene expression and in the maintenance of the integrity of the mitochondrial genome. Binds to mitochondrial DNA in a site-specific manner. Regulates mitochondrial DNA (mtDNA) copy number and transcription by stabilizing the mitochondrial TFAM:mtDNA ratio via selective degradation of TFAM.
(UniProt, Q7KUT2)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\Lon 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 New Section
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q7KUT2)

If you don't see the viewer to the right, 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.

Comments on Gene Model

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

Gene model reviewed during 5.46

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Lon-RA
FBtr0074967
NM_140876
3707
1006
Lon-RC
FBtr0273410
NM_168806
3761
1024
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
RefSeq ID
GenBank
Lon-PA
FBpp0074735
112.9
1006
7.32
NP_649133
AAF49134
Lon-PC
FBpp0271918
115.0
1024
7.66
NP_730435
AAN11654
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Homohexamer or homoheptamer. Organized in a ring with a central cavity.

(UniProt, Q7KUT2)
Crossreferences
InterPro - A database of protein families, domains and functional sites
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\Lon 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
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
day 5 of adulthood & male -- day 7 of adulthood & male
spermatozoon
(Wasbrough et al., 2010)
day 7 of adulthood -- day 49 of adulthood
adult heart
(Cammarato et al., 2011)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in mitochondrion
inferred from direct assay
(Matsushima et al., 2010)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Lon in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
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) 9-10
  • Stages(s) 11-12
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 7 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Lon
Transgenic constructs containing regulatory region of Lon
Aberrations (Deficiencies and Duplications) ( 4 )
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\LONP1
14 of 15
Yes
Yes
2  
Hsap\LONP2
2 of 15
No
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Lonp1
14 of 15
Yes
Yes
Mmus\Lonp2
2 of 15
No
Yes
Rattus norvegicus (Norway rat) (2)
Rnor\Lonp1
10 of 13
Yes
Yes
Rnor\Lonp2
2 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\lonp1
8 of 12
Yes
Yes
Xtro\lonp2
1 of 12
No
Yes
Danio rerio (Zebrafish) (2)
Drer\lonp1
13 of 15
Yes
Yes
Drer\lonp2
2 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (3)
Cele\lonp-1
13 of 15
Yes
Yes
Cele\lonp-2
2 of 15
No
Yes
Cele\T23G4.2
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (5)
Atha\LON1
8 of 9
Yes
Yes
Atha\LON3
7 of 9
No
Yes
Atha\LON4
7 of 9
No
Yes
Atha\AT3G05775
1 of 9
No
Yes
Atha\LON2
1 of 9
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\PIM1
14 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\lon1
11 of 12
Yes
Yes
Other Organism Orthologs (via OrthoDB)
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Model Summary Ribbon
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 1 )
Allele
Disease
Evidence
References
LonGD14030
model of  CODAS syndrome
CEA
(Pareek et al., 2018)
Potential Models Based on Orthology ( 1 )
Human Ortholog
Disease
Evidence
References
LONP1; lon peptidase 1, mitochondrial
model of  CODAS syndrome
IEA
(FlyBase, 2019-)
Modifiers Based on Experimental Evidence ( 3 )
Disease Associations of Human Orthologs (via DIOPT v8.0 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?
LONP1; lon peptidase 1, mitochondrial
14 of 15
605490
 
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
Show neighbor-neighbor interactions:
Select Layout:
Legend:
Protein
RNA
Selected Interactor(s)
Interactions Browser
View in Interactions Browser
Please see the Physical Interaction reports below for full details
protein-protein
Physical Interaction
Assay
References
Lon - Akt
anti tag coimmunoprecipitation, Identification by mass spectrometry
(Vinayagam et al., 2016)
Lon - Nrd1
anti tag coimmunoprecipitation, Identification by mass spectrometry
(Yoon et al., 2017)
Lon - Slimp
anti tag coimmunoprecipitation, western blot, pull down
(Picchioni et al., 2019)
Lon - ex
anti tag coimmunoprecipitation, peptide massfingerprinting
(Kwon et al., 2013)
Summary of Genetic Interactions
esyN Network Diagram
esyN Network Key:
Suppression
Enhancement
View in Interactions Browser
Please look at the allele data for full details of the genetic interactions
Starting gene(s)
Interaction type
Interacting gene(s)
Reference
Lon
suppressible
ClpP
(Pareek et al., 2018)
Lon
enhanceable
ClpP
(Pareek et al., 2018)
Starting gene(s)
Interaction type
Interacting gene(s)
Reference
Afg3l2
suppressible
Lon
(Pareek and Pallanck, 2020)
Nsf2
suppressible
Lon
(Laviolette et al., 2005)
Pink1
enhanceable
Lon
(Thomas et al., 2014)
Pink1
suppressible
Lon
(Thomas et al., 2014)
External Data
Subunit Structure (UniProtKB)
Homohexamer or homoheptamer. Organized in a ring with a central cavity.
(UniProt, Q7KUT2 )
Linkouts
DroID - A comprehensive database of gene and protein interactions.
MIST (genetic) - An integrated Molecular Interaction Database
MIST (protein-protein) - An integrated Molecular Interaction Database
Pathways
Signaling Pathways (FlyBase)
Metabolic Pathways
External Data
Linkouts
Genomic Location and Detailed Mapping Data
Chromosome (arm)
3L
Recombination map
3-45
Cytogenetic map
76B9-76B9
Sequence location
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
76B9-76B9
Limits computationally determined from genome sequence between P{EP}MESR6EP3142 and P{lacW}l(3)L3809L3809
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location

3-45

(FlyBase, 2016)

3-43.1

(Comeron et al., 2012)
Left of (cM)
Right of (cM)
Notes
Stocks and Reagents
Stocks (11)
Genomic Clones (15)
 

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

cDNA Clones (22)
 

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 GBrowse 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
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    Antibody Information
    Laboratory Generated Antibodies
     

    polyclonal

    (Matsushima et al., 2010)
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of

    Source for identity of: Lon CG8798

    (Matsushima et al., 2010)
    Source for database merge of

    Source for merge of: CG8798 anon-WO0118547.350

    (FlyBase, 1996-)
    Additional comments

    Source for merge of CG8798 anon-WO0118547.350 was sequence comparison ( date:051113 ).

    (FlyBase, 1996-)
    Other Comments

    Area matching Drosophila EST AA539054.

    (Davies, 2001.3.15)
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    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.
    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
    UniProt/TrEMBL - Automatically annotated and unreviewed 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
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    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
    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
    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
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
    InterPro - A database of protein families, domains and functional sites
    KEGG Genes - Molecular building blocks of life in the genomic space.
    MARRVEL_MODEL - MARRVEL (model organism gene)
    modMine - A data warehouse for the modENCODE project
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    DRSC - Results frm RNAi screens
    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
    FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
    FlyMine - An integrated database for Drosophila genomics
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (7)
    Datasets (8)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    Study result (8)
    Result
    Result Type
    Title
    scRNAseq_2020_Cattenoz_NI_seq_clustering
    Clustering analysis of hemocytes from non-infested third instar larvae
    scRNAseq_2020_Cattenoz_WI_seq_clustering
    Clustering analysis of hemocytes from wasp-infested third instar larvae
    scRNAseq_2020_Cho_NI72LG_seq_clustering
    Clustering analysis of lymph gland cells from non-infested larvae at 72 h after egg-laying
    scRNAseq_2020_Cho_NI96LG_seq_clustering
    Clustering analysis of lymph gland cells from non-infested larvae at 96 h after egg-laying
    scRNAseq_2020_Cho_NI120LG_seq_clustering
    Clustering analysis of lymph gland cells from non-infested larvae at 120 h after egg-laying
    scRNAseq_2020_Cho_WI96LG_seq_clustering
    Clustering analysis of lymph gland cells from wasp-infested larvae at 96 h after egg-laying
    scRNAseq_2020_Cho_NI96HL_seq_clustering
    Clustering analysis of circulating hemocytes from non-infested larvae at 96 h after egg-laying
    scRNAseq_2020_Cho_NI120HL_seq_clustering
    Clustering analysis of circulating hemocytes from non-infested larvae at 120 h after egg-laying
    References (75)