General Information
Symbol
Dmel\Pdp1
Species
D. melanogaster
Name
PAR-domain protein 1
Annotation Symbol
CG17888
Feature Type
FlyBase ID
FBgn0016694
Gene Model Status
Stock Availability
Gene Snapshot
PAR-domain protein 1 (Pdp1) is a member of the PAR domain bZip family of sequence-specific transcription factors. Pdp1 regulates gene expression in muscles and in circadian clock neurons. [Date last reviewed: 2017-03-02]
Also Known As
Pdp1ε, pdp, Pdp1e, Pdp-1
Genomic Location
Cytogenetic map
Sequence location
3L:7,811,458..7,867,369 [-]
Recombination map
3-21
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
GO Summary Ribbons
Families, Domains and Molecular Function
Gene Group Membership (FlyBase)
Protein Family (UniProt, Sequence Similarities)
-
Summaries
Gene Group Membership
BASIC LEUCINE ZIPPER TRANSCRIPTION FACTORS -
The basic leucine zipper (bZIP) transcription factors are sequence-specific DNA-binding proteins that regulate transcription. They are characterized by a 60-80 amino acid bZIP domain: a basic DNA binding domain followed by a leucine zipper dimerization domain. (Adapted from FBrf0152056).
Gene Model and Products
Number of Transcripts
13
Number of Unique Polypeptides
11

Please see the GBrowse view of Dmel\Pdp1 or the JBrowse view of Dmel\Pdp1 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
Comments on Gene Model
Low-frequency RNA-Seq exon junction(s) not annotated.
Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated
Stage-specific extension of 3' UTRs observed during embryogenesis (FBrf0215804); all variants may not be annotated.
Gene model reviewed during 5.45
Annotated transcripts do not represent all supported alternative splices within 5' UTR.
Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.
Gene model reviewed during 5.46
Gene model reviewed during 5.56
Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0076776
5065
270
FBtr0076782
4746
570
FBtr0076780
4702
647
FBtr0076775
2828
250
FBtr0076777
5107
284
FBtr0300499
3862
232
FBtr0300500
4643
633
FBtr0306535
6855
270
FBtr0332080
4197
581
FBtr0332081
5080
275
FBtr0332082
5098
281
FBtr0332083
2870
264
FBtr0346536
6398
270
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
FBpp0076491
30.4
270
7.15
FBpp0076497
63.2
570
7.62
FBpp0076495
70.0
647
7.96
FBpp0076490
28.3
250
6.80
FBpp0076492
31.9
284
8.45
FBpp0289726
26.0
232
6.52
FBpp0289727
68.4
633
7.54
FBpp0297493
30.4
270
7.15
FBpp0304390
64.4
581
8.37
FBpp0304391
30.9
275
6.80
FBpp0304392
31.6
281
8.45
FBpp0304393
29.9
264
8.09
FBpp0312154
30.4
270
7.15
Polypeptides with Identical Sequences

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

270 aa isoforms: Pdp1-PB, Pdp1-PK, Pdp1-PP
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Nucleotide / Polypeptide Records
 
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Pdp1 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (9 terms)
Molecular Function (4 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000945219
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000945219
(assigned by GO_Central )
Biological Process (4 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
inferred from direct assay
inferred from mutant phenotype
inferred from genetic interaction with FLYBASE:vri; FB:FBgn0016076
inferred from direct assay
(assigned by UniProt )
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
traceable author statement
inferred from electronic annotation with InterPro:IPR040223
(assigned by InterPro )
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
inferred from direct assay
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000945219
(assigned by GO_Central )
inferred by curator from GO:0003700
(assigned by UniProt )
Expression Data
Transcript Expression
expression microarray
Stage
Tissue/Position (including subcellular localization)
Reference
adult brain

Comment: Pdp1 mRNA levels do not significantly differ between ZT4 and ZT16.

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

Comment: maternally deposited

northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
RT-PCR
Stage
Tissue/Position (including subcellular localization)
Reference
adult head

Comment: expression specific to isoforms Pdp1-RD, RJ

Additional Descriptive Data
The Pdp1 isoforms Pdp1-RD and RJ, collectively referred in this paper as Pdp1-ε isoform, are detected in the heads of adult flies by RT-PCR. In conditions of constant darkness, the levels of both isoforms cycle, increasing gradually from CT02 until CT14, and decreasing after that until CT20.
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
western blot
Stage
Tissue/Position (including subcellular localization)
Reference
adult head

Comment: expression specific to isoforms Pdp1-PD, PJ

Additional Descriptive Data
The Pdp1 isoforms Pdp1-PD and PD, collectively referred in this paper as Pdp1-ε isoform, are detected in head extracts of adult flies by western blot. The isoform Pdp1-PJ is the predominant one. Both isoforms show a cycling behaviour, with levels gradually increasing from CT02 until CT18, and decrease after that until ZT22. Immunostaining reveals that at ZT20, Pdp1 protein is expressed in the dorsal and ventral lateral clock neurons (LNd and LNv) in the adult brain.
Pdp1 is predominantly nuclear at ZT18.
Marker for
 
Subcellular Localization
CV Term
Evidence
References
inferred from direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Pdp1 in GBrowse 2
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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
Alleles, Insertions, Transgenic Constructs and Phenotypes
Classical and Insertion Alleles ( 30 )
For All Classical and Insertion Alleles Show
 
Allele of Pdp1
Class
Mutagen
Associated Insertion
Stocks
Known lesion
    0
    --
    Other relevant insertions
    insertion of mobile activating element
    Name
    Expression Data
    Transgenic Constructs ( 10 )
    Deletions and Duplications ( 5 )
    Summary of 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 v7.1)
    Homo sapiens (Human) (4)
    Species\Gene Symbol
    Score
    Best Score
    Best Reverse Score
    Alignment
    Complementation?
    Transgene?
    10 of 15
    Yes
    Yes
    8 of 15
    No
    Yes
    7 of 15
    No
    Yes
    1 of 15
    No
    No
    Model Organism Orthologs (via DIOPT v7.1)
    Mus musculus (laboratory mouse) (6)
    Species\Gene Symbol
    Score
    Best Score
    Best Reverse Score
    Alignment
    Complementation?
    Transgene?
    10 of 15
    Yes
    Yes
    7 of 15
    No
    Yes
    7 of 15
    No
    Yes
    1 of 15
    No
    No
    1 of 15
    No
    No
    1 of 15
    No
    No
    Rattus norvegicus (Norway rat) (5)
    10 of 13
    Yes
    Yes
    7 of 13
    No
    Yes
    6 of 13
    No
    Yes
    1 of 13
    No
    Yes
    1 of 13
    No
    No
    Xenopus tropicalis (Western clawed frog) (4)
    9 of 12
    Yes
    Yes
    3 of 12
    No
    Yes
    3 of 12
    No
    Yes
    1 of 12
    No
    No
    Danio rerio (Zebrafish) (13)
    10 of 15
    Yes
    Yes
    7 of 15
    No
    Yes
    7 of 15
    No
    Yes
    6 of 15
    No
    Yes
    6 of 15
    No
    Yes
    4 of 15
    No
    Yes
    1 of 15
    No
    No
    1 of 15
    No
    No
    1 of 15
    No
    Yes
    1 of 15
    No
    No
    1 of 15
    No
    No
    1 of 15
    No
    No
    Caenorhabditis elegans (Nematode, roundworm) (7)
    6 of 15
    Yes
    Yes
    4 of 15
    No
    No
    2 of 15
    No
    No
    1 of 15
    No
    No
    1 of 15
    No
    No
    1 of 15
    No
    Yes
    1 of 15
    No
    No
    Arabidopsis thaliana (thale-cress) (0)
    No orthologs reported.
    Saccharomyces cerevisiae (Brewer's yeast) (0)
    No orthologs reported.
    Schizosaccharomyces pombe (Fission yeast) (0)
    No orthologs reported.
    Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190E6R )
    Organism
    Common Name
    Gene
    AAA Syntenic Ortholog
    Multiple Dmel Genes in this Orthologous Group
    Drosophila melanogaster
    fruit fly
    Drosophila suzukii
    Spotted wing Drosophila
    Drosophila simulans
    Drosophila sechellia
    Drosophila erecta
    Drosophila yakuba
    Drosophila ananassae
    Drosophila pseudoobscura pseudoobscura
    Drosophila persimilis
    Drosophila willistoni
    Drosophila virilis
    Drosophila mojavensis
    Drosophila grimshawi
    Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091508P5 )
    Organism
    Common Name
    Gene
    Multiple Dmel Genes in this Orthologous Group
    Musca domestica
    House fly
    Lucilia cuprina
    Australian sheep blowfly
    Mayetiola destructor
    Hessian fly
    Aedes aegypti
    Yellow fever mosquito
    Anopheles darlingi
    American malaria mosquito
    Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W09GL )
    Organism
    Common Name
    Gene
    Multiple Dmel Genes in this Orthologous Group
    Bombyx mori
    Silkmoth
    Danaus plexippus
    Monarch butterfly
    Heliconius melpomene
    Postman butterfly
    Apis florea
    Little honeybee
    Apis mellifera
    Western honey bee
    Bombus impatiens
    Common eastern bumble bee
    Bombus terrestris
    Buff-tailed bumblebee
    Linepithema humile
    Argentine ant
    Megachile rotundata
    Alfalfa leafcutting bee
    Nasonia vitripennis
    Parasitic wasp
    Dendroctonus ponderosae
    Mountain pine beetle
    Tribolium castaneum
    Red flour beetle
    Pediculus humanus
    Human body louse
    Rhodnius prolixus
    Kissing bug
    Cimex lectularius
    Bed bug
    Acyrthosiphon pisum
    Pea aphid
    Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0HCL )
    Organism
    Common Name
    Gene
    Multiple Dmel Genes in this Orthologous Group
    Strigamia maritima
    European centipede
    Ixodes scapularis
    Black-legged tick
    Stegodyphus mimosarum
    African social velvet spider
    Tetranychus urticae
    Two-spotted spider mite
    Daphnia pulex
    Water flea
    Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0EO0 )
    Organism
    Common Name
    Gene
    Multiple Dmel Genes in this Orthologous Group
    Strongylocentrotus purpuratus
    Purple sea urchin
    Ciona intestinalis
    Vase tunicate
    Gallus gallus
    Domestic chicken
    Gallus gallus
    Domestic chicken
    Human Disease Model Data
    FlyBase Human Disease Model Reports
      Alleles Reported to Model Human Disease (Disease Ontology)
      Download
      Models ( 0 )
      Allele
      Disease
      Evidence
      References
      Interactions ( 0 )
      Allele
      Disease
      Interaction
      References
      Comments ( 0 )
       
      Human Orthologs (via DIOPT v7.1)
      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
      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.
      Interactions
      Summary of Physical Interactions
      esyN Network Diagram
      Show neighbor-neighbor interactions:
      Select Layout:
      Legend:
      Protein
      RNA
      Selected Interactor(s)
      Interactions Browser

      Please look at the Interaction Group reports for full details of the physical interactions
      RNA-protein
      Interacting group
      Assay
      References
      protein-protein
      Interacting group
      Assay
      References
      Summary of Genetic Interactions
      esyN Network Diagram
      esyN Network Key:
      Suppression
      Enhancement

      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
      Linkouts
      BioGRID - A database of protein and genetic interactions.
      DroID - A comprehensive database of gene and protein interactions.
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      Pathways
      Gene Group - Pathway Membership (FlyBase)
      External Data
      Linkouts
      KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
      Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
      SignaLink - A signaling pathway resource with multi-layered regulatory networks.
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      3L
      Recombination map
      3-21
      Cytogenetic map
      Sequence location
      3L:7,811,458..7,867,369 [-]
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      66A14-66A17
      Limits computationally determined from genome sequence between P{PZ}l(3)0721708223&P{EP}Rac2EP3118 and P{lacW}Nmtj1C7
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      66A12-66A17
      66A12-66A17
      (determined by in situ hybridisation)
      Experimentally Determined Recombination Data
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (31)
      Genomic Clones (34)
      cDNA Clones (108)
       

      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 sequences
      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)
      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
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of
      Source for identity of: Pdp1 CG3129
      Source for database merge of
      Source for merge of: Pdp1 CG17888
      Source for merge of: Pdp1 anon-WO0140519.206
      Additional comments
      Source for merge of Pdp1 anon-WO0140519.206 was sequence comparison ( date:051113 ).
      Other Comments
      Pdp1 is sensitive to nutritional conditions, with two of its protein isoforms becoming upregulated in response to food withdrawal.
      Pdp1 is an essential clock gene. Pdp1 and vri, together with Clk, comprise a second feedback loop in the Drosophila clock.
      Identified as a gene with significant level of mRNA cycling as assessed by expression analysis using high density oligonucleotide arrays with probe generated from adult heads harvested over six time points over the course of a day. Showed cycling in Canton S and low expression in Clk mutants in microarray experiments. Identified in S2/cycloheximide assay as a direct target of Clk mediated transcriptional regulation.
      Pdp1 is likely to be involved in the transcriptional control of different developmental pathways through the use of differentially expressed Pdp1 isoforms.
      Pdp1 is involved in regulating expression of Tm2 gene in the somatic body wall and pharyngeal muscles by binding to DNA sequences within the muscle activator that are required for activator function. Results suggest Pdp1 may function as part of a large protein/DNA complex that interacts with Mef2 to regulate muscle gene transcription. Pdp1 may also be involved in terminal differentiation of the midgut endoderm, hindgut and Malpighian tubules, the epidermis and the central nervous system.
      Mutations that eliminate Pdp1 binding eliminate muscle activator function and severely reduce expression of a muscle activator.
      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 132 )
      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 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.
      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
      Other crossreferences
      BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
      InterPro - A database of protein families, domains and functional sites
      KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
      Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
      Linkouts
      BioGRID - A database of protein and genetic interactions.
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center cDNA clones
      DPiM - Drosophila Protein interaction map
      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.
      FLIGHT - Cell culture data for RNAi and other high-throughput technologies
      FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
      Flygut - An atlas of the Drosophila adult midgut
      FlyMine - An integrated database for Drosophila genomics
      Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      KEGG Genes - Molecular building blocks of life in the genomic space.
      modMine - A data warehouse for the modENCODE project
      SignaLink - A signaling pathway resource with multi-layered regulatory networks.
      Synonyms and Secondary IDs (30)
      Reported As
      Symbol Synonym
      PAR-domain protein 1
      anon-WO0140519.206
      Name Synonyms
      PAR DOMAIN PROTEIN 1
      PAR Domain Protein 1
      PAR domain protein 1ε
      PAR-DOMAIN-PROTEIN 1
      PAR-Domain Protein 1
      PAR-protein domain1
      Par Domain Protein 1
      Par domain protein 1ε
      par domain protein 1
      Secondary FlyBase IDs
      • FBgn0035820
      • FBgn0044667
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      References (203)