Human Gene PIN4 (ENST00000373669.8_6) from GENCODE V47lift37
  Description: peptidylprolyl cis/trans isomerase, NIMA-interacting 4, transcript variant 3 (from RefSeq NR_033187.2)
Gencode Transcript: ENST00000373669.8_6
Gencode Gene: ENSG00000102309.15_12
Transcript (Including UTRs)
   Position: hg19 chrX:71,401,607-71,418,190 Size: 16,584 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chrX:71,401,636-71,417,376 Size: 15,741 Coding Exon Count: 4 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:71,401,607-71,418,190)mRNA (may differ from genome)Protein (131 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PIN4_HUMAN
DESCRIPTION: RecName: Full=Peptidyl-prolyl cis-trans isomerase NIMA-interacting 4; EC=5.2.1.8; AltName: Full=Parvulin-14; Short=Par14; Short=hPar14; AltName: Full=Parvulin-17; Short=Par17; Short=hPar17; AltName: Full=Peptidyl-prolyl cis-trans isomerase Pin4; Short=PPIase Pin4; AltName: Full=Peptidyl-prolyl cis/trans isomerase EPVH; Short=hEPVH; AltName: Full=Rotamase Pin4;
FUNCTION: Isoform 1 is involved as a ribosomal RNA processing factor in ribosome biogenesis. Binds to tightly bent AT-rich stretches of double-stranded DNA.
FUNCTION: Isoform 2 binds to double-stranded DNA.
CATALYTIC ACTIVITY: Peptidylproline (omega=180) = peptidylproline (omega=0).
SUBUNIT: Isoform 1 is found in pre-ribosomal ribonucleoprotein (pre-rRNP) complexes (By similarity).
SUBCELLULAR LOCATION: Isoform 1: Nucleus, nucleolus. Cytoplasm, cytoskeleton, spindle. Cytoplasm. Note=Colocalizes in the nucleolus during interphase and on the spindle apparatus during mitosis with NPM1.
SUBCELLULAR LOCATION: Isoform 2: Mitochondrion. Mitochondrion matrix. Note=Imported in a time- and membrane potential-dependent manner to the mitochondrial matrix, but without concomitant processing of the protein. Directed to mitochondria by a novel N- terminal domain that functions as non-cleavable mitochondrial targeting peptide.
TISSUE SPECIFICITY: Isoform 2 is much more stable than isoform 1 (at protein level). Ubiquitous. Isoform 1 and isoform 2 are expressed in kidney, liver, blood vessel, brain, mammary gland, skeletal muscle, small intestine and submandibularis. Isoform 1 transcripts are much more abundant than isoform 2 in each tissue analyzed.
DOMAIN: The PPIase domain enhances mitochondrial targeting.
PTM: Phosphorylated. Isoform 1 phosphorylation occurs both in the nucleus and the cytoplasm. Isoform 1 phosphorylation at Ser-19 does not affect its PPIase activity but is required for nuclear localization, and the dephosphorylation is a prerequisite for the binding to DNA. The unphosphorylated isoform 1 associates with the pre-rRNP complexes in the nucleus.
PTM: Isoform 2 is sumoylated with SUMO2 and SUMO3.
SIMILARITY: Belongs to the PpiC/parvulin rotamase family. PIN4 subfamily.
SIMILARITY: Contains 1 PpiC domain.
SEQUENCE CAUTION: Sequence=AAH05234.2; Type=Erroneous initiation; Sequence=AAH70288.1; Type=Erroneous initiation; Sequence=AAI04654.1; Type=Erroneous initiation; Sequence=AAI11395.1; Type=Erroneous initiation;

-  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: 5.11 RPKM in Thyroid
Total median expression: 190.24 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 -3.1029-0.107 Picture PostScript Text
3' UTR -186.20814-0.229 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
IPR000297 - PPIase_PpiC

Pfam Domains:
PF00639 - PPIC-type PPIASE domain
PF13616 - PPIC-type PPIASE domain

SCOP Domains:
54534 - FKBP-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1EQ3 - NMR 1FJD - NMR 3UI4 - X-ray 3UI5 - X-ray


ModBase Predicted Comparative 3D Structure on Q9Y237
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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 SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003681 bent DNA binding
GO:0003690 double-stranded DNA binding
GO:0003723 RNA binding
GO:0003755 peptidyl-prolyl cis-trans isomerase activity
GO:0005515 protein binding
GO:0016853 isomerase activity

Biological Process:
GO:0000413 protein peptidyl-prolyl isomerization
GO:0006364 rRNA processing

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix
GO:0005819 spindle
GO:0005856 cytoskeleton
GO:0030684 preribosome


-  Descriptions from all associated GenBank mRNAs
  LF385344 - JP 2014500723-A/192847: Polycomb-Associated Non-Coding RNAs.
AK127605 - Homo sapiens cDNA FLJ45703 fis, clone FEBRA2026582, moderately similar to Peptidyl-prolyl cis-trans isomerase NIMA-interacting 4 (EC 5.2.1.8).
MA620921 - JP 2018138019-A/192847: Polycomb-Associated Non-Coding RNAs.
LF211602 - JP 2014500723-A/19105: Polycomb-Associated Non-Coding RNAs.
BC112281 - Homo sapiens protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin), mRNA (cDNA clone MGC:138486 IMAGE:8327749), complete cds.
BC093700 - Homo sapiens protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin), mRNA (cDNA clone MGC:120735 IMAGE:7939545), complete cds.
HQ258728 - Synthetic construct Homo sapiens clone IMAGE:100072758 protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin) (PIN4) gene, encodes complete protein.
KJ897335 - Synthetic construct Homo sapiens clone ccsbBroadEn_06729 PIN4 gene, encodes complete protein.
AB009690 - Homo sapiens mRNA for parvulin, complete cds.
BC005234 - Homo sapiens protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin), mRNA (cDNA clone IMAGE:3683177), partial cds.
BC070288 - Homo sapiens protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin), mRNA (cDNA clone IMAGE:4669199), partial cds.
BC111394 - Homo sapiens protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin), mRNA (cDNA clone IMAGE:4272551), partial cds.
BC104653 - Homo sapiens protein (peptidylprolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin), mRNA (cDNA clone IMAGE:6738474), partial cds.
AF143096 - Homo sapiens peptidyl-prolyl cis-trans isomerase EPVH mRNA, complete cds.
KJ905859 - Synthetic construct Homo sapiens clone ccsbBroadEn_15529 PIN4 gene, encodes complete protein.
LF353449 - JP 2014500723-A/160952: Polycomb-Associated Non-Coding RNAs.
LF341907 - JP 2014500723-A/149410: Polycomb-Associated Non-Coding RNAs.
LF381821 - JP 2014500723-A/189324: Polycomb-Associated Non-Coding RNAs.
LF341906 - JP 2014500723-A/149409: Polycomb-Associated Non-Coding RNAs.
LF381823 - JP 2014500723-A/189326: Polycomb-Associated Non-Coding RNAs.
LF381824 - JP 2014500723-A/189327: Polycomb-Associated Non-Coding RNAs.
JD494684 - Sequence 475708 from Patent EP1572962.
JD284442 - Sequence 265466 from Patent EP1572962.
JD499480 - Sequence 480504 from Patent EP1572962.
MA577484 - JP 2018138019-A/149410: Polycomb-Associated Non-Coding RNAs.
MA577483 - JP 2018138019-A/149409: Polycomb-Associated Non-Coding RNAs.
MA447179 - JP 2018138019-A/19105: Polycomb-Associated Non-Coding RNAs.
MA589026 - JP 2018138019-A/160952: Polycomb-Associated Non-Coding RNAs.
MA617398 - JP 2018138019-A/189324: Polycomb-Associated Non-Coding RNAs.
MA617400 - JP 2018138019-A/189326: Polycomb-Associated Non-Coding RNAs.
MA617401 - JP 2018138019-A/189327: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8E0G6, B3KXM0, ENST00000373669.1, ENST00000373669.2, ENST00000373669.3, ENST00000373669.4, ENST00000373669.5, ENST00000373669.6, ENST00000373669.7, F5H1P5, NR_033187, PIN4_HUMAN, Q0D2H3, Q3MHV0, Q52M21, Q5HYW6, Q6IRW4, Q9Y237, uc318kys.1, uc318kys.2
UCSC ID: ENST00000373669.8_6
RefSeq Accession: NM_006223.4
Protein: Q9Y237 (aka PIN4_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.