A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\Rpn1

General Information
SymbolDmel\Rpn1SpeciesD. melanogaster
NameRpn1Annotation symbolCG7762
Feature typeprotein_coding_geneFlyBase IDFBgn0028695
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)3LRecombination map
Cytogenetic map76D4-76D4Sequence location3L:19,908,156..19,911,265 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
This gene is referred to in FlyBase by the symbol Rpn1 (CG7762, FBgn0028695). It has the cytological map location 76D4. Its sequence location is 3L:19908156..19911265. Its molecular function is described as: endopeptidase activity; enzyme regulator activity; binding. It is involved in the biological processes: proteolysis; mitotic spindle organization and biogenesis; mitotic spindle elongation; cell proliferation; regulation of protein catabolic process. One allele is reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
76D4-76D4  
Limits computationally determined from genome sequence between P{lacW}l(3)L1243L1243&P{lacW}Mi-2j3D4 and P{PZ}eRF100103  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\Rpn1 for information on other features
detailed view FBtr0074918 FBtr0074893 FBtr0074917 FBtr0074916 FBpp0074687 FBpp0074662 FBpp0074685 FBpp0074686
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Rpn1-RA
FBtr0074893
 NM_140901
  3041
  919
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
Rpn1-PA  
FBpp0074662  
102.3  
919  
5.64  
  NP_649158
  AAF49095
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Proteasome/cyclosome, regulatory subunit (IPR002015)
Armadillo-type fold (IPR016024)
26S proteasome regulatory complex, non-ATPase subcomplex, Rpn1 subunit (IPR016643)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA246933
 
AA567742
 
AA695547
 
AA736133
 
AA801787
 
AA802330
 
AA803197
 
AA816918
 
AA942224
 
AE003515
AAF49095
 
AF132182
AAD34770
 
AF145304
AAF08385
 
AI062944
 
AI107273
 
AI108107
 
AI108179
 
AI257079
 
AI259881
 
AI260153
 
AI295127
 
AI295204
 
AI295539
 
AI296708
 
AI297541
 
AI386833
 
AI387525
 
AI402889
 
AI404907
 
AI455201
 
AI511638
 
AI512461
 
AI513981
 
AI532675
 
AI533717
 
AI534734
 
AI541760
 
AI541813
 
AI543480
 
AT01786
 
BF493497
 
BF493498
 
BF504094
 
BG634203
 
BI235323
 
BI237872
 
BI242148
 
BI354407
 
BI363947
 
BI365503
 
BI365579
 
BI366098
 
BI372006
 
BI372436
 
CK131354
 
CK132462
 
CO155070
 
CO276231
 
CO288065
 
EC066619
 
EC196035
 
EC212370
 
EC217081
 
EC242007
 
EC261143
 
EC264710
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (Dolenc, 1999.4.23, Holzl et al., 2000)
    (BDGP Project Members, 2000-)
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        hide Microarray Data
        Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)
        Untitled Document detailed view FBtr0074918 FBtr0074893 FBtr0074917 FBtr0074916
        AA941185
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 0 )
        For All Classical Alleles Show

        Allele of Rpn1ClassMutagenStocksKnown lesion
        hide Alleles Carried on Transgenic Constructs ( 1 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of Rpn1ClassMutagenStocksKnown lesion
        Rpn1GD99591 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        UAS construct
        P{GD9959}
        NA
        Insertions
        Type of insertions
        Name
        Expression data
        hide Related Comments
        Please look at the allele reports for the complete phenotype data
        RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R+ cells.
        (Boutros et al., 2004)
        RNAi screen using dsRNA made from templates generated with primers directed against this gene results in the formation of short, monastral spindles and severe proliferation defects when assayed in S2 cells. This phenotype can be observed when the screen is performed with or without Cdc27 dsRNA.
        (Goshima et al., 2007)
        hide Gene Ontology: Function, Process & Cellular Component ( 10 )
        hide Molecular Function
        CV term
        Evidence
        References
        binding
        inferred from electronic annotation with InterPro:IPR016024
        (FlyBase Curators et al., 2004-)
        endopeptidase activity
        inferred from direct assay
        (Holzl et al., 2000)
        enzyme regulator activity
        inferred from electronic annotation with InterPro:IPR016643
        (FlyBase Curators et al., 2004-)
        hide Biological Process
        CV term
        Evidence
        References
        cell proliferation
        inferred from mutant phenotype
        (Goshima et al., 2007)
        mitotic spindle elongation
        inferred from mutant phenotype
        (Goshima et al., 2007)
        mitotic spindle organization and biogenesis
        inferred from mutant phenotype
        (Goshima et al., 2007)
        proteolysis
        inferred from direct assay AND inferred from sequence or structural similarity with HGNC_gene:PSMD2; HGNC:9559; OMIM:606223 AND inferred from sequence or structural similarity with SGD_LOCUS:RPN1; SGD:S0001069
        (Holzl et al., 2000)
        regulation of protein catabolic process
        inferred from electronic annotation with InterPro:IPR016643
        (FlyBase Curators et al., 2004-)
        hide Cellular Component
        CV term
        Evidence
        References
        proteasome regulatory particle
        inferred from direct assay AND inferred from sequence or structural similarity with HGNC_gene:PSMD2; HGNC:9559; OMIM:606223
        (Holzl et al., 2000)
        proteasome regulatory particle, base subcomplex
        non-traceable author statement
        (Dolenc, 1999.4.23)
        inferred from sequence or structural similarity with SGD_LOCUS:RPN1; SGD:S0001069
        (Holzl et al., 2000)
        hide Sequence Ontology: Class of Gene
        protein_coding_gene
         
        nuclear_gene
         
        hide Interactions & Pathways
        hide Summary of Genetic Interactions
        Interacts with
        Please look at the allele data for full details of the genetic interactions
        Rpn1 allele
        Gene
        References
        hide External Data
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        Drosophila PIMRider - The Drosophila Protein Interaction map
        •
        hide Orthologs
        Genome-wide drosophilid orthologs
        Curated drosophilid orthologs
         
        Linkouts
        InParanoid orthologs - Eukaryotic orthologs
        •
        hide Functional Complementation between Species
        hide Inter-Species Misexpression Data
        Produces phenotype in
        Produces NO phenotype in
        hide Stocks & Reagents
        hide Stocks Listed in FlyBase ( 1 )
        VDRC
        v25549
        w1118; P{GD9959}v25549
        hide Genomic Clones ( 1 )
        hide cDNA Clones ( 51 )
        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
        cDNA Clones, End Sequenced (ESTs)
        BDGP DGC clones
        Other clones
        hide RNAi & Array Information
        Affy Oligo
        Linkouts
        DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
        •
        GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
        •
        hide Antibody Information
        hide Other Information
        hide Discoverer
        hide Etymology
        hide Identification
        hide Position Effect Variegation Data
        hide Relationship to Other Genes
        Source for database identity of
        Source for database merge of
        Source for merge of: Rpn1 BcDNA:LD21723 Source for merge of Rpn1 BcDNA:LD21723 was sequence comparison (date:991227).
        (FlyBase, 1996-)
        Additional comments
        hide Comments About Role
        hide Comments About Molecular Function
        hide Other Comments
        hide External Crossreferences & Linkouts
        Sequence Crossreferences
        RefSeq (Transcripts)
        •
        RefSeq (Proteins)
        •
        DDBJ / EMBL / GenBank
        •
        UniProtKB/TrEMBL
        •
        Other Crossreferences
        InterPro domains - A database of protein families, domains, and functional sites
        •
        Proteasome/cyclosome, regulatory subunit (IPR002015)
        Armadillo-type fold (IPR016024)
        26S proteasome regulatory complex, non-ATPase subcomplex, Rpn1 subunit (IPR016643)
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        DEDB - Drosophila exon database: splicing graphs
        •
        DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
        •
        Drosophila PIMRider - The Drosophila Protein Interaction map
        •
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
        •
        InParanoid orthologs - Eukaryotic orthologs
        •
        PANTHER - Protein classification by function, families, and pathways
        •
        hide Synonyms & Secondary IDs ( 4 )
        Reported As
        Symbol Synonym
        BcDNA:LD21723
         
        CG7762
        (Goshima et al., 2007)
        p97
        (Sumegi et al., 2003, Kurucz et al., 2002, Holzl et al., 2000)
        Rpn1
        (Goshima et al., 2007)
        Name Synonym
        Rpn1
         
        Secondary FlyBase IDs
        • FBgn0027517
        hide References ( 14 )
        Research paper
        Sumegi et al., 2003, Biochem. biophys. Res. Commun. 312(4): 1284--1289
        26S proteasome subunits are O-linked N-acetylglucosamine-modified in Drosophila melanogaster. [FBrf0167335]
        Kurucz et al., 2002, Biochem. J. 365(2): 527--536
        Assembly of the Drosophila 26 S proteasome is accompanied by extensive subunit rearrangements. [FBrf0151780]
        Holzl et al., 2000, J. Cell Biol. 150(1): 119--129
        The regulatory complex of Drosophila melanogaster 26S Proteasomes. Subunit composition and localization of a deubiquitylating enzyme. [FBrf0128494]
        Supplementary material
        Goshima et al., 2007, Science 316(5823):
        Supporting online material for Genes required for mitotic spindle assembly in Drosophila S2 cells. [FBrf0200397]
        Boutros et al., 2004, Science 303(5659):
        Supporting Online Material: Figures S1 to S8; Tables S1 to S6. [FBrf0174218]
        Giot et al., 2003, Science 302(5651):
        Tables S1 to S7. [FBrf0166452]
        Personal communication to FlyBase
        Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center
        RNAi construct and insertion data