FB2024_02 , released April 23, 2024
Gene: Dmel\elg1
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General Information
Symbol
Dmel\elg1
Species
D. melanogaster
Name
enhanced level of genomic instability 1
Annotation Symbol
CG16838
Feature Type
protein_coding_gene
FlyBase ID
FBgn0036574
Gene Model Status
Current
Stock Availability
12 publicly available
Gene Summary
Has an important role in DNA replication and in maintaining genome integrity during replication stress (By similarity). Promotes PCNA deubiquitination (By similarity). As component of the Elg1 RFC-like complex, regulates the functions of the DNA polymerase processivity factor PCNA by unloading it from DNA after replication during the S phase of the cell cycle (PubMed:27198229). The PCNA-unloading might be regulated via interaction with the Enok acetyltransferase complex (PubMed:27198229). Might have a role in restarting of stalled/regressed replication forks during replication stress (By similarity). In the ovaries, has a role in nurse cell endoreplication (PubMed:27198229). (UniProt, Q86BP6)
Contribute a Gene Snapshot for this gene.
All Summaries
Key Links
Genomic Location
Cytogenetic map
72D9-72D9
Sequence location
Recombination map
3-44
RefSeq locus
NT_037436 REGION:16132028..16136691
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
Gene Ontology (GO) Annotations (5 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables DNA binding
inferred from biological aspect of ancestor with PANTHER:PTN000406286
(GO Reference Genome Project, 2011-)
enables DNA clamp unloader activity
inferred from biological aspect of ancestor with PANTHER:PTN001039896
(GO Reference Genome Project, 2011-)
Biological Process (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
involved_in oogenesis
inferred from mutant phenotype
(Hayashi et al., 2014)
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
part_of Elg1 RFC-like complex
inferred from direct assay
(Huang et al., 2016)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
is_active_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000406286
(GO Reference Genome Project, 2011-)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the ELG1 family. (Q86BP6)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
ELG1 COMPLEX -
The Elg1 complex (Elg1-C) is a pentameric replication factor C (RFC)-like complex. Elg1-C unloads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) from chromatin. (Adapted from FBrf0232456).
RFC COMPLEX ATPASES -
Replication factor C (RFC) complexes act as loaders or unloaders of the proliferating cell nuclear antigen (PCNA) (or related sliding clamp complexes) during DNA replication- and/or repair-linked processes. The classic RFC1-RFC complex (comprising RFC1 and four smaller subunits, RFC2-5) and Ctf18-RFC (in which RFC1 is substituted with Ctf1 and two other smaller proteins) fundamentally function as PCNA loaders. Rad17-RFC (in which RFC1 is substituted with Rad17) loads the PCNA-like hetero-trimeric 9-1-1 complex at damaged DNA sites. On the other hand, Elg1-RFC (in which RFC1 is substituted for Elg1) functions as a PCNA unloader, removing PCNA from chromatin after DNA synthesis. RFC1-5, Ctf1, Rad17 and Elg1 belong to the AAA+ ATPase family. (Adapted from PMID:28134787.)
Protein Function (UniProtKB)
Has an important role in DNA replication and in maintaining genome integrity during replication stress (By similarity). Promotes PCNA deubiquitination (By similarity). As component of the Elg1 RFC-like complex, regulates the functions of the DNA polymerase processivity factor PCNA by unloading it from DNA after replication during the S phase of the cell cycle (PubMed:27198229). The PCNA-unloading might be regulated via interaction with the Enok acetyltransferase complex (PubMed:27198229). Might have a role in restarting of stalled/regressed replication forks during replication stress (By similarity). In the ovaries, has a role in nurse cell endoreplication (PubMed:27198229).
(UniProt, Q86BP6)
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\elg1 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 Q86BP6)

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.

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

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)
elg1-RC
FBtr0089713
NM_206381
4200
1162
elg1-RD
FBtr0089714
NM_206380
3950
1106
elg1-RE
FBtr0307518
NM_001259860
4104
1106
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
elg1-PC
FBpp0088654
129.4
1162
9.99
Q86BP6
NP_996103
AAN11762
elg1-PD
FBpp0088655
123.6
1106
10.03
Q9VUZ2
NP_996102
AAF49530
elg1-PE
FBpp0300173
123.6
1106
10.03
Q9VUZ2
NP_001246789
AFH04460
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

1106 aa isoforms: elg1-PD, elg1-PE
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Component of a heteropentameric Elg1 RFC-like complex composed of one large subunit (elg1) and four small subunits (RfC4, RfC38, CG8142 and RfC3) (PubMed:27198229). As part of the complex, might interact with the Enok complex, composed of enok, Br140, Eaf6 and Ing5 (PubMed:27198229). Within the Enok complex, interacts directly with Br140 (PubMed:27198229).

(UniProt, Q86BP6)
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\elg1 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).

-0.33

Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
part_of Elg1 RFC-like complex
inferred from direct assay
(Huang et al., 2016)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\elg1 in JBrowse
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
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
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 10 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 5 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of elg1
Transgenic constructs containing regulatory region of elg1
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation ( 1 )
Gene disrupted in
Df(3L)Exel6128
(Ryder, 2004.4.26)
Inferred from location ( 0 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (3)
Hsap\ATAD5
8 of 14
Yes
Yes
Hsap\CRLF3
1 of 14
No
Yes
Hsap\RFC1
1 of 14
No
No
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (2)
Rnor\Atad5
8 of 14
Yes
Yes
Rnor\Rfc1
1 of 14
No
No
Mus musculus (laboratory mouse) (2)
Mmus\Atad5
8 of 14
Yes
Yes
Mmus\Crlf3
1 of 14
No
Yes
Xenopus tropicalis (Western clawed frog) (3)
Xtro\atad5
6 of 13
Yes
Yes
Xtro\dnaja3
1 of 13
No
No
Xtro\LOC101731166
1 of 13
No
Yes
Danio rerio (Zebrafish) (4)
Drer\atad5a
7 of 14
Yes
Yes
Drer\atad5b
4 of 14
No
Yes
Drer\crlf3
1 of 14
No
Yes
Drer\rfc1
1 of 14
No
No
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\Y53F4B.9
3 of 14
Yes
Yes
Anopheles gambiae (African malaria mosquito) (2)
Agam\AgaP_AGAP006062
11 of 12
Yes
Yes
Agam\AgaP_AGAP001290
1 of 12
No
No
Arabidopsis thaliana (thale-cress) (2)
Atha\AT1G77620
3 of 13
Yes
Yes
Atha\RFC1
2 of 13
No
No
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\ELG1
4 of 13
Yes
Yes
Scer\RFC1
2 of 13
No
No
Schizosaccharomyces pombe (Fission yeast) (2)
Spom\elg1
5 of 12
Yes
Yes
Spom\rfc1
2 of 12
No
No
Escherichia coli (enterobacterium) (2)
Ecol\ligA
1 of 11
Yes
No
Ecol\ligB
1 of 11
Yes
No
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:elg1. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (2)
Gnf1
2 of 13
cutlet
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?
    ATAD5; ATPase family AAA domain containing 5
    8 of 14
    609534
        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
        Summary of Genetic Interactions
        esyN Network Diagram
        Show/hide secondary interactors 
        (data from AllianceMine provided by esyN)
        esyN Network Key:
        Suppression
        Enhancement
        View in 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
        elg1
        suppressible
        enok
        (Huang et al., 2016)
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        External Data
        Subunit Structure (UniProtKB)
        Component of a heteropentameric Elg1 RFC-like complex composed of one large subunit (elg1) and four small subunits (RfC4, RfC38, CG8142 and RfC3) (PubMed:27198229). As part of the complex, might interact with the Enok complex, composed of enok, Br140, Eaf6 and Ing5 (PubMed:27198229). Within the Enok complex, interacts directly with Br140 (PubMed:27198229).
        (UniProt, Q86BP6 )
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        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
        3-44
        Cytogenetic map
        72D9-72D9
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        72D9-72D9
        Limits computationally determined from genome sequence between P{lacW}SsRβs1939 and P{lacW}l(3)72Dnj5A4
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        3-44

        (FlyBase, 2016)

        3-38.4

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (12)
        Genomic Clones (16)
         

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

        cDNA Clones (35)
         

        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
           

          polyclonal

          (Huang et al., 2016)
          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: elg1 CG16838

              (Hayashi et al., 2014)
              Nomenclature comments
              Etymology
              Synonyms and Secondary IDs (5)
              Datasets (0)
              Study focus (0)
              Experimental Role
              Project
              Project Type
              Title
              Study result (0)
              Result
              Result Type
              Title
              External Crossreferences and Linkouts ( 38 )
              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.
              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
              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)
              Linkouts
              BioGRID - A database of protein and genetic interactions.
              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
              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 (38)