FB2022_02, released March 29, 2022

Gene: Dmel\Topors

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General Information
Symbol
Dmel\Topors
Species
D. melanogaster
Name
Topoisomerase I-interacting protein
Annotation Symbol
CG15104
Feature Type
protein_coding_gene
FlyBase ID
FBgn0267351
Gene Model Status
Current
Stock Availability
8 publicly available
Gene Summary
Topoisomerase I-interacting protein (Topors) encodes a RING-finger containing putative dual Ubiquitin/SUMO ligase. It is required in the male germ line for maintenance of nuclear shape and meiosis I chromosome segregation. It also targets sumoylation of the developmental transcription factor encoded by h. [Date last reviewed: 2019-03-21] (FlyBase Gene Snapshot)
All Summaries
Also Known As

dTopors, nbl, nuclear blebber

Key Links
Genomic Location
Cytogenetic map
56A2-56A2
Sequence location
Recombination map
2-87
RefSeq locus
NT_033778 REGION:18972612..18977262
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 (19 terms)
Molecular Function (6 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
enables lamin binding
inferred from direct assay
(assigned by UniProt )
(Capelson and Corces, 2005)
enables protein binding
inferred from physical interaction with UniProtKB:P14003
(assigned by UniProt )
(Secombe and Parkhurst, 2004)
inferred from physical interaction with UniProtKB:P08970
(assigned by UniProt )
(Capelson and Corces, 2005)
inferred from physical interaction with UniProtKB:Q86B87
(assigned by UniProt )
(Capelson and Corces, 2005)
enables ubiquitin protein ligase activity
inferred from direct assay
(Secombe and Parkhurst, 2004)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
enables metal ion binding
inferred from electronic annotation with InterPro:IPR018957
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
enables SUMO transferase activity
inferred from sequence or structural similarity with UniProtKB:Q9NS56
(FlyBase Curators, 2008-)
enables zinc ion binding
inferred from sequence model
(Ying et al., 2011)
Biological Process (9 terms)
Terms Based on Experimental Evidence (8 terms)
CV Term
Evidence
References
involved_in centrosome separation
inferred from mutant phenotype
(Matsui et al., 2011)
involved_in male meiosis chromosome segregation
inferred from mutant phenotype
(Matsui et al., 2011)
involved_in meiotic chromosome condensation
inferred from mutant phenotype
(Matsui et al., 2011)
involved_in nuclear membrane organization
inferred from mutant phenotype
(Matsui et al., 2011)
involved_in nucleus organization
inferred from mutant phenotype
(assigned by UniProt )
(Capelson and Corces, 2005)
involved_in protein polyubiquitination
inferred from direct assay
(Secombe and Parkhurst, 2004)
involved_in regulation of transcription, DNA-templated
inferred from genetic interaction with UniProtKB:P14003
(assigned by UniProt )
(Secombe and Parkhurst, 2004)
involved_in ubiquitin-dependent protein catabolic process
inferred from direct assay
(Secombe and Parkhurst, 2004)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in protein import into peroxisome matrix
inferred from biological aspect of ancestor with PANTHER:PTN000598603
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (4 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
located_in nuclear lamina
inferred from direct assay
(Matsui et al., 2011, Capelson and Corces, 2005)
located_in nucleus
inferred from direct assay
(Capelson and Corces, 2005)
located_in polytene chromosome
inferred from direct assay
(Capelson and Corces, 2005)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
is_active_in peroxisomal membrane
inferred from biological aspect of ancestor with PANTHER:PTN000598603
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Snapshot
Topoisomerase I-interacting protein (Topors) encodes a RING-finger containing putative dual Ubiquitin/SUMO ligase. It is required in the male germ line for maintenance of nuclear shape and meiosis I chromosome segregation. It also targets sumoylation of the developmental transcription factor encoded by h. [Date last reviewed: 2019-03-21]
Gene Group (FlyBase)
OTHER RING DOMAIN UBIQUITIN LIGASES -
The RING (Really Interesting New Gene) finger domain co-ordinates two Zn2+ ions via conserved Cys and His residues. Most proteins which contain a RING finger are assumed to be ubiquitin (E3) ligases. The RING finger binds ubiquitin-conjugating enzymes (E2) and promotes direct transfer of ubiquitin to the target protein. (Adapted from FBrf0215242 and PMID:19489725).
SUMO TRANSFERASES -
SUMO transferases catalyze the transfer of SUMO from either E2 or E3 enzyme to a substrate.
Protein Function (UniProtKB)
Functions as a ubiquitin-protein E3 ligase. Negatively regulates the transcriptional repressor h/hairy by promoting its ubiquitination and subsequent degradation. Also directs the nuclear organization of the gypsy chromatin insulator. Chromatin insulators are regulatory elements which establish independent domains of transcriptional activity within eukaryotic genomes. Insulators have two defining properties; they can block the communication between an enhancer and a promoter when placed between them, and can also buffer transgenes from position effect variegation (PEV). Insulators are proposed to structure the chromatin fiber into independent domains of differing transcriptional potential by promoting the formation of distinct chromatin loops. This chromatin looping may require the formation of insulator bodies, where homotypic interactions between individual subunits of the insulator complex could promote the clustering of widely spaced insulators at the nuclear periphery. Within the gypsy insulator complex, this protein may promote formation of nuclear insulator bodies by recruiting individual insulator complexes to the nuclear lamina.
(UniProt, Q9V8P9)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Topors 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 Q9V8P9)

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 5.45

Sequence Ontology: Class of Gene
gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Topors-RA
FBtr0086570
NM_137544
4042
1038
Topors-RB
FBtr0331977
NM_001274154
4298
1038
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
Topors-PA
FBpp0085754
113.3
1038
4.38
NP_611388
AAF57614
Topors-PB
FBpp0304302
113.3
1038
4.38
NP_001261083
AGB93615
Polypeptides with Identical Sequences

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

1038 aa isoforms: Topors-PA, Topors-PB
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Interacts with h/hairy, p53 and Top1. Interacts with the gypsy chromatin insulator complex, composed of Cp190, mod(mdg4) and su(Hw); interacts directly with mod(mdg4) and su(Hw). Interacts with Lam/lamin.

(UniProt, Q9V8P9)
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\Topors 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
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in nuclear lamina
inferred from direct assay
(Matsui et al., 2011, Capelson and Corces, 2005)
located_in nucleus
inferred from direct assay
(Capelson and Corces, 2005)
located_in polytene chromosome
inferred from direct assay
(Capelson and Corces, 2005)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Topors 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
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
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 5 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 11 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Topors
Transgenic constructs containing regulatory region of Topors
Aberrations (Deficiencies and Duplications) ( 3 )
Inferred from experimentation ( 3 )
Gene partially disrupted in
Df(2R)ToporsAA
(Secombe and Parkhurst, 2004)
Gene disrupted in
Df(2R)Exel6068
(Matsui et al., 2011, Ryder, 2004.4.26)
Df(2R)PC66
(Matsui et al., 2011)
Inferred from location ( 0 )
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4Mef2.PR
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
Sterility
Allele
male fertile
male semi-sterile (with Df(2R)ToporsAA)
male semi-sterile (with Toporsf05115)
male semi-sterile (with ToporsZ1837)
male semi-sterile (with ToporsZ4522)
male semi-sterile | recessive
male sterile
Other Phenotypes
Allele
abnormal meiotic cell cycle | dominant | male limited
abnormal meiotic cell cycle | male limited (with Df(2R)ToporsAA)
abnormal meiotic cell cycle | male limited (with Toporsf05115)
abnormal meiotic cell cycle | male limited (with ToporsZ1837)
abnormal meiotic cell cycle | male limited (with ToporsZ4522)
abnormal meiotic cell cycle | male limited | recessive
decreased fecundity | male
decreased fecundity | male (with Df(2R)ToporsAA)
decreased fecundity | male (with Toporsf05115)
decreased fecundity | male (with ToporsZ1837)
decreased fecundity | male (with ToporsZ4522)
Phenotype manifest in
Allele
centriole | male limited
nucleus
spermatocyte
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\TOPORS
10 of 15
Yes
Yes
Hsap\PEX10
1 of 15
No
No
1  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (3)
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\Topors
9 of 15
Yes
Yes
Mmus\Toporsl
4 of 15
No
Yes
Mmus\Pex10
1 of 15
No
No
Rattus norvegicus (Norway rat) (3)
Rnor\Topors
7 of 13
Yes
Yes
Rnor\Pex10
1 of 13
No
No
Rnor\RGD1309291
1 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\topors
5 of 12
Yes
Yes
Xtro\pex10
1 of 12
No
No
Danio rerio (Zebrafish) (3)
Drer\toporsa
9 of 15
Yes
Yes
Drer\toporsb
6 of 15
No
Yes
Drer\pex10
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (2)
Cele\C32D5.11
3 of 15
Yes
Yes
Cele\C32D5.10
2 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\PEX10
1 of 9
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\PEX10
1 of 15
Yes
No
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\pas4
1 of 12
Yes
No
Other Organism Orthologs (via OrthoDB)
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (3)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG18605
3 of 10
l(3)psg2
1 of 10
Pex10
1 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 1 )
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    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?
    TOPORS; TOP1 binding arginine/serine rich protein, E3 ubiquitin ligase
    10 of 15
    609507
    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
    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
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    cindr
    enhanceable
    Topors
    (Ketosugbo et al., 2017)
    ct
    suppressible
    Topors
    (Matsui et al., 2011)
    h
    suppressible
    Topors
    (Secombe and Parkhurst, 2004)
    y
    suppressible
    Topors
    (Capelson and Corces, 2005)
    External Data
    Subunit Structure (UniProtKB)
    Interacts with h/hairy, p53 and Top1. Interacts with the gypsy chromatin insulator complex, composed of Cp190, mod(mdg4) and su(Hw); interacts directly with mod(mdg4) and su(Hw). Interacts with Lam/lamin.
    (UniProt, Q9V8P9 )
    Linkouts
    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)
    2R
    Recombination map
    2-87
    Cytogenetic map
    56A2-56A2
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    56A2-56A2
    Limits computationally determined from genome sequence between P{lacW}prodk08810 and P{PZ}ena02029&P{lacW}corak08713
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location

    2-87

    (FlyBase, 2016)

    2-92.6

    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (8)
    Genomic Clones (19)
    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 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
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Antibody Information
      Laboratory Generated Antibodies
       

      polyclonal

      (Capelson and Corces, 2005)
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of

      Source for identity of: Topors CG15104

      (Secombe and Parkhurst, 2004)
      Source for database merge of

      Source for merge of: Topors nbl

      (Matsui et al., 2011)
      Additional comments
      Other Comments

      Topors is required for gypsy\su(Hw)BR insulator function.

      (Capelson and Corces, 2005)

      Identification: as a protein that interacts with h protein.

      (Secombe and Parkhurst, 2004)

      Topors protein mediates h protein polyubiquitination and can lead to h protein degradation.

      (Secombe and Parkhurst, 2004)
      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 34 )
      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.
      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
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      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
      DroID - A comprehensive database of gene and protein interactions.
      MIST (protein-protein) - An integrated Molecular Interaction Database
      Synonyms and Secondary IDs (8)
      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 (43)