Human Gene PFDN1 (ENST00000261813.9_7) from GENCODE V47lift37
  Description: prefoldin subunit 1 (from RefSeq NM_002622.5)
Gencode Transcript: ENST00000261813.9_7
Gencode Gene: ENSG00000113068.10_9
Transcript (Including UTRs)
   Position: hg19 chr5:139,624,620-139,682,686 Size: 58,067 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr5:139,625,559-139,682,658 Size: 57,100 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:139,624,620-139,682,686)mRNA (may differ from genome)Protein (122 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PFD1_HUMAN
DESCRIPTION: RecName: Full=Prefoldin subunit 1;
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.
SUBUNIT: Heterohexamer of two PFD-alpha type and four PFD-beta type subunits.
SIMILARITY: Belongs to the prefoldin subunit beta family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 44.68 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 1414.55 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -5.2028-0.186 Picture PostScript Text
3' UTR -327.40939-0.349 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002777 - PFD_beta-like
IPR009053 - Prefoldin

Pfam Domains:
PF01920 - Prefoldin subunit

SCOP Domains:
46579 - Prefoldin

ModBase Predicted Comparative 3D Structure on O60925
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
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 RGDEnsembl WormBase 
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0044183 protein binding involved in protein folding
GO:0051082 unfolded protein binding

Biological Process:
GO:0006355 regulation of transcription, DNA-templated
GO:0006457 protein folding
GO:0007010 cytoskeleton organization

Cellular Component:
GO:0005737 cytoplasm
GO:0016272 prefoldin complex


-  Descriptions from all associated GenBank mRNAs
  BC011869 - Homo sapiens prefoldin subunit 1, mRNA (cDNA clone MGC:19844 IMAGE:2959726), complete cds.
BC003620 - Homo sapiens prefoldin subunit 1, mRNA (cDNA clone MGC:1989 IMAGE:2959698), complete cds.
BC006202 - Homo sapiens prefoldin subunit 1, mRNA (cDNA clone MGC:3806 IMAGE:2959725), complete cds.
AK093558 - Homo sapiens cDNA FLJ36239 fis, clone THYMU2001443.
AX748200 - Sequence 1725 from Patent EP1308459.
JD044215 - Sequence 25239 from Patent EP1572962.
Y17392 - Homo sapiens mRNA for prefoldin subunit 1.
JD533978 - Sequence 515002 from Patent EP1572962.
AK223394 - Homo sapiens mRNA for prefoldin 1 variant, clone: FCC107D06.
JD460353 - Sequence 441377 from Patent EP1572962.
JD469365 - Sequence 450389 from Patent EP1572962.
JD290048 - Sequence 271072 from Patent EP1572962.
JD521880 - Sequence 502904 from Patent EP1572962.
JD309227 - Sequence 290251 from Patent EP1572962.
JD102871 - Sequence 83895 from Patent EP1572962.
JD043753 - Sequence 24777 from Patent EP1572962.
JD507118 - Sequence 488142 from Patent EP1572962.
JD224906 - Sequence 205930 from Patent EP1572962.
JD140377 - Sequence 121401 from Patent EP1572962.
JD431644 - Sequence 412668 from Patent EP1572962.
JD485438 - Sequence 466462 from Patent EP1572962.
JD027377 - Sequence 8401 from Patent EP1572962.
JD459267 - Sequence 440291 from Patent EP1572962.
JD148930 - Sequence 129954 from Patent EP1572962.
JD497374 - Sequence 478398 from Patent EP1572962.
JD354943 - Sequence 335967 from Patent EP1572962.
JD035188 - Sequence 16212 from Patent EP1572962.
JD300448 - Sequence 281472 from Patent EP1572962.
JD367139 - Sequence 348163 from Patent EP1572962.
JD252458 - Sequence 233482 from Patent EP1572962.
JD324931 - Sequence 305955 from Patent EP1572962.
JD087547 - Sequence 68571 from Patent EP1572962.
JD167415 - Sequence 148439 from Patent EP1572962.
DQ576278 - Homo sapiens piRNA piR-44390, complete sequence.
JD372200 - Sequence 353224 from Patent EP1572962.
JD317799 - Sequence 298823 from Patent EP1572962.
JD193324 - Sequence 174348 from Patent EP1572962.
AK315353 - Homo sapiens cDNA, FLJ96398, Homo sapiens prefoldin 1 (PFDN1), mRNA.
KJ891783 - Synthetic construct Homo sapiens clone ccsbBroadEn_01177 PFDN1 gene, encodes complete protein.
AB464063 - Synthetic construct DNA, clone: pF1KB8250, Homo sapiens PFDN1 gene for prefoldin subunit 1, without stop codon, in Flexi system.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O60925 (Reactome details) participates in the following event(s):

R-HSA-389980 unfolded actin/tubulin associates with prefoldin
R-HSA-389970 Actin/tubulin:prefoldin complex associates with CCT/TriC
R-HSA-389957 Prefoldin mediated transfer of substrate to CCT/TriC
R-HSA-389958 Cooperation of Prefoldin and TriC/CCT in actin and tubulin folding
R-HSA-390466 Chaperonin-mediated protein folding
R-HSA-391251 Protein folding
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B2RD02, ENST00000261813.1, ENST00000261813.2, ENST00000261813.3, ENST00000261813.4, ENST00000261813.5, ENST00000261813.6, ENST00000261813.7, ENST00000261813.8, NM_002622, O60925, PFD1, PFD1_HUMAN, Q53F95, Q96EX6, uc317gtx.1, uc317gtx.2
UCSC ID: ENST00000261813.9_7
RefSeq Accession: NM_002622.5
Protein: O60925 (aka PFD1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.