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Aliases for PFDN1 Gene

Aliases for PFDN1 Gene

  • Prefoldin Subunit 1 2 3 3 5
  • Prefoldin 1 2 3
  • PFD1 3 4
  • PDF 3

External Ids for PFDN1 Gene

Previous GeneCards Identifiers for PFDN1 Gene

  • GC05M139447
  • GC05M139607
  • GC05M139653
  • GC05M139604
  • GC05M134769

Summaries for PFDN1 Gene

Entrez Gene Summary for PFDN1 Gene

  • This gene encodes a member of the prefoldin beta subunit family. The encoded protein is one of six subunits of prefoldin, a molecular chaperone complex that binds and stabilizes newly synthesized polypeptides, thereby allowing them to fold correctly. The complex, consisting of two alpha and four beta subunits, forms a double beta barrel assembly with six protruding coiled-coils. [provided by RefSeq, Jul 2008]

GeneCards Summary for PFDN1 Gene

PFDN1 (Prefoldin Subunit 1) is a Protein Coding gene. Among its related pathways are Cooperation of Prefoldin and TriC/CCT in actin and tubulin folding and Metabolism of proteins. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and protein binding involved in protein folding.

UniProtKB/Swiss-Prot for PFDN1 Gene

  • Binds specifically to cytosolic chaperonin (c-CPN) and transfers target proteins to it. Binds to nascent polypeptide chain and promotes folding in an environment in which there are many competing pathways for nonnative proteins.

Gene Wiki entry for PFDN1 Gene

Additional gene information for PFDN1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PFDN1 Gene

Genomics for PFDN1 Gene

GeneHancer (GH) Regulatory Elements for PFDN1 Gene

Promoters and enhancers for PFDN1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J140301 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 719.4 +0.3 298 2.2 PKNOX1 SMAD1 ATF1 ARNT ARID4B SIN3A YBX1 ZNF2 ZNF48 YY1 PFDN1 CYSTM1 HBEGF ENSG00000253965 SLC4A9 EIF4EBP3 SLC35A4 GC05M140174
GH05J140174 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 83 +126.1 126134 5.2 HDGF PKNOX1 SMAD1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 CYSTM1 PFDN1 UBE2D2 PCDHB5 PCDHB3 IK PCDHB4 ENSG00000250069 GC05M140174
GH05J140257 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 82.4 +43.0 42983 5.5 PKNOX1 ATF1 FOXA2 FEZF1 YY1 ELK1 ZNF548 FOS ATF7 RXRA PFDN1 HBEGF ANKHD1 APBB3 HARS2 CD14 SLC4A9 ENSG00000253965 WDR55 SRA1
GH05J140214 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 83.7 +82.8 82767 11.2 PKNOX1 ARNT FEZF1 YY1 ZNF766 FOS JUNB REST ZNF592 KAT8 PFDN1 CYSTM1 HBEGF PCDHA7 SRA1 ANKHD1 ENSG00000250069 PIR37389 GC05M140174
GH05J140190 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 83.1 +112.3 112298 1.4 PKNOX1 ATF1 TCF12 GATA2 ATF7 REST MEF2D NFIL3 ATF4 SMARCA4 PFDN1 IGIP CYSTM1 ENSG00000250069 GC05M140174
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PFDN1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PFDN1 gene promoter:
  • LCR-F1
  • FOXO4
  • FOXJ2 (long isoform)
  • FOXJ2
  • POU2F1
  • POU2F1a
  • ATF-2
  • CREB
  • deltaCREB
  • Evi-1

Genomic Locations for PFDN1 Gene

Genomic Locations for PFDN1 Gene
chr5:140,245,039-140,303,121
(GRCh38/hg38)
Size:
58,083 bases
Orientation:
Minus strand
chr5:139,624,624-139,682,706
(GRCh37/hg19)
Size:
58,083 bases
Orientation:
Minus strand

Genomic View for PFDN1 Gene

Genes around PFDN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PFDN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PFDN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PFDN1 Gene

Proteins for PFDN1 Gene

  • Protein details for PFDN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60925-PFD1_HUMAN
    Recommended name:
    Prefoldin subunit 1
    Protein Accession:
    O60925
    Secondary Accessions:
    • B2RD02
    • Q53F95
    • Q96EX6

    Protein attributes for PFDN1 Gene

    Size:
    122 amino acids
    Molecular mass:
    14210 Da
    Quaternary structure:
    • Heterohexamer of two PFD-alpha type and four PFD-beta type subunits.

neXtProt entry for PFDN1 Gene

Post-translational modifications for PFDN1 Gene

  • Ubiquitination at Lys106 and Lys11
  • Modification sites at PhosphoSitePlus

Other Protein References for PFDN1 Gene

No data available for DME Specific Peptides for PFDN1 Gene

Domains & Families for PFDN1 Gene

Gene Families for PFDN1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for PFDN1 Gene

Suggested Antigen Peptide Sequences for PFDN1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O60925

UniProtKB/Swiss-Prot:

PFD1_HUMAN :
  • Belongs to the prefoldin subunit beta family.
Family:
  • Belongs to the prefoldin subunit beta family.
genes like me logo Genes that share domains with PFDN1: view

Function for PFDN1 Gene

Molecular function for PFDN1 Gene

UniProtKB/Swiss-Prot Function:
Binds specifically to cytosolic chaperonin (c-CPN) and transfers target proteins to it. Binds to nascent polypeptide chain and promotes folding in an environment in which there are many competing pathways for nonnative proteins.
GENATLAS Biochemistry:
prefoldin subunit 1,keratin homologous

Phenotypes From GWAS Catalog for PFDN1 Gene

Gene Ontology (GO) - Molecular Function for PFDN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003700 DNA binding transcription factor activity TAS 8744932
GO:0044183 protein binding involved in protein folding IPI 16876117
GO:0051082 unfolded protein binding IEA --
genes like me logo Genes that share ontologies with PFDN1: view
genes like me logo Genes that share phenotypes with PFDN1: view

Animal Model Products

miRNA for PFDN1 Gene

miRTarBase miRNAs that target PFDN1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PFDN1 Gene

Localization for PFDN1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PFDN1 gene
Compartment Confidence
cytosol 4
nucleus 3
plasma membrane 2
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoli (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PFDN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0016272 prefoldin complex IEA --
genes like me logo Genes that share ontologies with PFDN1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for PFDN1 Gene

Pathways & Interactions for PFDN1 Gene

genes like me logo Genes that share pathways with PFDN1: view

Gene Ontology (GO) - Biological Process for PFDN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006457 protein folding IEA --
GO:0007010 cytoskeleton organization IBA --
genes like me logo Genes that share ontologies with PFDN1: view

No data available for SIGNOR curated interactions for PFDN1 Gene

Drugs & Compounds for PFDN1 Gene

No Compound Related Data Available

Transcripts for PFDN1 Gene

mRNA/cDNA for PFDN1 Gene

Unigene Clusters for PFDN1 Gene

Prefoldin subunit 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PFDN1 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4a · 4b
SP1: -
SP2: - -
SP3:

Relevant External Links for PFDN1 Gene

GeneLoc Exon Structure for
PFDN1
ECgene alternative splicing isoforms for
PFDN1

Expression for PFDN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PFDN1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PFDN1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PFDN1 Gene



Protein tissue co-expression partners for PFDN1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PFDN1 Gene:

PFDN1

SOURCE GeneReport for Unigene cluster for PFDN1 Gene:

Hs.483564

Evidence on tissue expression from TISSUES for PFDN1 Gene

  • Intestine(4.4)
  • Nervous system(4.1)
  • Lung(3)
  • Liver(2)
genes like me logo Genes that share expression patterns with PFDN1: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PFDN1 Gene

Orthologs for PFDN1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PFDN1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PFDN1 34 33
  • 99.73 (n)
OneToOne
dog
(Canis familiaris)
Mammalia PFDN1 34
  • 99 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
cow
(Bos Taurus)
Mammalia PFDN1 34 33
  • 92.62 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Pfdn1 16 34 33
  • 91.26 (n)
rat
(Rattus norvegicus)
Mammalia Pfdn1 33
  • 91.26 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PFDN1 34
  • 74 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PFDN1 34
  • 71 (a)
OneToOne
chicken
(Gallus gallus)
Aves PFDN1 34 33
  • 80.87 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PFDN1 34
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100497275 33
  • 76.5 (n)
Str.799 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.11472 33
zebrafish
(Danio rerio)
Actinopterygii pfdn1 34 33
  • 73.5 (n)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13981 33
fruit fly
(Drosophila melanogaster)
Insecta CG13993 34
  • 33 (a)
OneToOne
Species where no ortholog for PFDN1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PFDN1 Gene

ENSEMBL:
Gene Tree for PFDN1 (if available)
TreeFam:
Gene Tree for PFDN1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PFDN1: view image

Paralogs for PFDN1 Gene

Pseudogenes.org Pseudogenes for PFDN1 Gene

genes like me logo Genes that share paralogs with PFDN1: view

No data available for Paralogs for PFDN1 Gene

Variants for PFDN1 Gene

Sequence variations from dbSNP and Humsavar for PFDN1 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000058291 -- 140,278,453(-) C/G intron_variant
rs1000184013 -- 140,272,324(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000299545 -- 140,278,760(-) G/C intron_variant
rs1000323924 -- 140,265,286(-) G/A genic_downstream_transcript_variant, intron_variant
rs1000360692 -- 140,254,152(-) A/C genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PFDN1 Gene

Variant ID Type Subtype PubMed ID
nsv830507 CNV loss 17160897

Variation tolerance for PFDN1 Gene

Residual Variation Intolerance Score: 56.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.09; 2.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PFDN1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PFDN1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PFDN1 Gene

Disorders for PFDN1 Gene

Additional Disease Information for PFDN1

No disorders were found for PFDN1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PFDN1 Gene

Publications for PFDN1 Gene

  1. Prefoldin, a chaperone that delivers unfolded proteins to cytosolic chaperonin. (PMID: 9630229) Vainberg IE … Cowan NJ (Cell 1998) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Expression, cellular distribution and protein binding of the glioma amplified sequence (GAS41), a highly conserved putative transcription factor. (PMID: 11521196) Munnia A … Meese E (Oncogene 2001) 3 22 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for PFDN1 Gene

Sources for PFDN1 Gene

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