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    PPIF peptidylprolyl isomerase F [ Homo sapiens (human) ]

    Gene ID: 10105, updated on 3-Dec-2024

    Summary

    Official Symbol
    PPIFprovided by HGNC
    Official Full Name
    peptidylprolyl isomerase Fprovided by HGNC
    Primary source
    HGNC:HGNC:9259
    See related
    Ensembl:ENSG00000108179 MIM:604486; AllianceGenome:HGNC:9259
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CYP3; CypD; CyP-M; Cyp-D
    Summary
    The protein encoded by this gene is a member of the peptidyl-prolyl cis-trans isomerase (PPIase) family. PPIases catalyze the cis-trans isomerization of proline imidic peptide bonds in oligopeptides and accelerate the folding of proteins. This protein is part of the mitochondrial permeability transition pore in the inner mitochondrial membrane. Activation of this pore is thought to be involved in the induction of apoptotic and necrotic cell death. [provided by RefSeq, Jul 2008]
    Annotation information
    Note: This gene encodes a 178 aa mature peptide that is found in the mitochondrion. It has been labeled 'cyclophilin D'. This same name has also been applied to a different cytoplasmic protein of 370 aa, which is represented by Entrez GeneID 5481, PPID. [05 May 2010]
    Expression
    Ubiquitous expression in adrenal (RPKM 72.6), bone marrow (RPKM 44.8) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PPIF in Genome Data Viewer
    Location:
    10q22.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (79347469..79355334)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (80216813..80224678)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (81107225..81115090)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ZMIZ1 antisense RNA 1 Neighboring gene uncharacterized LOC112268062 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory element GRCh37_chr10:80782948-80783448 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr10:80806812-80808011 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80808619-80809301 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3622 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80814153-80814652 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2523 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2524 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2525 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80827637-80828482 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3623 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80832039-80832542 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80839841-80840350 Neighboring gene hESC enhancers GRCh37_chr10:80843535-80844106 and GRCh37_chr10:80844107-80844676 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2528 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80847474-80848460 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80848461-80849447 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80850069-80850570 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80850571-80851070 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:80853442-80853942 and GRCh37_chr10:80853471-80853971 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80856811-80857382 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3625 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80860971-80861854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80861855-80862738 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80862739-80863620 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:80867111-80867288 Neighboring gene HNF1 motif-containing MPRA enhancer 157 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80872521-80873111 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80873112-80873701 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80873702-80874292 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80874293-80874881 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2529 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3626 Neighboring gene zinc finger MIZ-type containing 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80886414-80886932 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80889167-80889808 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory element GRCh37_chr10:80892363-80892863 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80897004-80897684 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80904675-80905613 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2531 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2532 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80915969-80916820 Neighboring gene HNF1 motif-containing MPRA enhancer 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80918523-80919372 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80922057-80922728 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80930785-80931574 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80938197-80938813 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80937580-80938196 Neighboring gene Sharpr-MPRA regulatory region 270 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80941281-80941897 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:80943423-80944622 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80944822-80945581 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80947279-80947814 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80947815-80948349 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80949957-80950491 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3628 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80960740-80961240 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80961241-80961741 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3629 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:80969381-80970255 Neighboring gene VISTA enhancer hs1767 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80984385-80985122 Neighboring gene Sharpr-MPRA regulatory region 8427 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80996789-80997417 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80996160-80996788 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80999933-81000560 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:80999304-80999932 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:81001601-81002552 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81003385-81003885 and GRCh37_chr10:81003389-81003889 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory element GRCh37_chr10:81004281-81005113 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3632 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3634 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3635 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2537 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81007811-81008725 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81008726-81009639 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3637 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81015755-81016750 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81016751-81017746 Neighboring gene Sharpr-MPRA regulatory region 1120 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81023533-81024492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3638 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:81025451-81026410 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:81033176-81034046 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81034047-81034918 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81034919-81035789 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:81039443-81039612 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3639 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory element GRCh37_chr10:81044989-81045489 Neighboring gene H3K4me1 hESC enhancers GRCh37_chr10:81046379-81047029 and GRCh37_chr10:81045728-81046378 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2538 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81053513-81054274 and GRCh37_chr10:81053559-81054389 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:81064163-81065362 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81071537-81072037 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81072795-81073294 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81076336-81076836 to GRCh37_chr10:81076368-81076868 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81077051-81077551 to GRCh37_chr10:81077572-81078072 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:81078090-81078665 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81080832-81081332 to GRCh37_chr10:81080873-81081373 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81082504-81083416 to GRCh37_chr10:81082920-81083420 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3643 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81088372-81088872 to GRCh37_chr10:81088582-81089082 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:81091043-81092242 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81106892-81107469 to GRCh37_chr10:81107706-81108206 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81108973-81109473 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81111476-81111976 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81112809-81113784 to GRCh37_chr10:81113845-81114345 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory element GRCh37_chr10:81115805-81116305 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81134127-81134627 and GRCh37_chr10:81134130-81134914 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:81135469-81136005 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81145819-81146746 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81150060-81150645 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory element GRCh37_chr10:81159191-81159691 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81162702-81163510 Neighboring gene CRISPRi-FlowFISH-validated PPIF regulatory elements GRCh37_chr10:81163946-81164446 and GRCh37_chr10:81163953-81164453 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81165127-81165934 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81172654-81173164 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81173165-81173673 Neighboring gene zinc finger CCHC-type containing 24 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81184235-81184736 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:81194851-81195489 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2541 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2542 Neighboring gene uncharacterized LOC105378383

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    capsid gag The interaction of HIV-1 CA with human cellular peptidylprolyl isomerase F protein (PPIF, cyclophilin F) is identified by yeast two-hybrid screen PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ90798, MGC117207

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA polymerase II CTD heptapeptide repeat P3 isomerase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II CTD heptapeptide repeat P6 isomerase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cyclosporin A binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables peptide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables peptidyl-prolyl cis-trans isomerase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables peptidyl-prolyl cis-trans isomerase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in apoptotic mitochondrial changes IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to arsenic-containing substance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to calcium ion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to hydrogen peroxide IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cellular response to hydrogen peroxide IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mitochondrial depolarization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mitochondrial outer membrane permeabilization involved in programmed cell death IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in necroptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of ATP-dependent activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of apoptotic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of intrinsic apoptotic signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of oxidative phosphorylation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of oxidative phosphorylation uncoupler activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of release of cytochrome c from mitochondria IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein folding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of mitochondrial membrane permeability IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of mitochondrial membrane permeability ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of mitochondrial membrane permeability involved in programmed necrotic cell death IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of mitochondrial membrane permeability involved in programmed necrotic cell death IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of proton-transporting ATPase activity, rotational mechanism ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in response to ischemia ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in skeletal muscle fiber differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in mitochondrial inner membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in mitochondrial matrix IEA
    Inferred from Electronic Annotation
    more info
     
    part_of mitochondrial permeability transition pore complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in mitochondrion HTP PubMed 
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    peptidyl-prolyl cis-trans isomerase F, mitochondrial
    Names
    PPIase F
    cyclophilin 3
    cyclophilin D
    cyclophilin F
    mitochondrial cyclophilin
    peptidyl-prolyl cis-trans isomerase, mitochondrial
    rotamase F
    NP_005720.1
    XP_005269436.1
    XP_054220447.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_005729.4NP_005720.1  peptidyl-prolyl cis-trans isomerase F, mitochondrial precursor

      See identical proteins and their annotated locations for NP_005720.1

      Status: REVIEWED

      Source sequence(s)
      BC013204, BE791220
      Consensus CDS
      CCDS7358.1
      UniProtKB/Swiss-Prot
      P30405, Q2YDB7, Q5W131
      UniProtKB/TrEMBL
      B2R6X6
      Related
      ENSP00000225174.3, ENST00000225174.8
      Conserved Domains (1) summary
      cd01926
      Location:46204
      cyclophilin_ABH_like; cyclophilin_ABH_like: Cyclophilin A, B and H-like cyclophilin-type peptidylprolyl cis- trans isomerase (PPIase) domain. This family represents the archetypal cystolic cyclophilin similar to human cyclophilins A, B and H. PPIase is an enzyme which ...

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      79347469..79355334
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005269379.3XP_005269436.1  peptidyl-prolyl cis-trans isomerase F, mitochondrial isoform X1

      UniProtKB/TrEMBL
      H0Y548
      Related
      ENSP00000396388.1, ENST00000448165.1
      Conserved Domains (1) summary
      cl00197
      Location:46163
      cyclophilin; cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the ...

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      80216813..80224678
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054364472.1XP_054220447.1  peptidyl-prolyl cis-trans isomerase F, mitochondrial isoform X1

      UniProtKB/TrEMBL
      H0Y548