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FKBP3 FKBP prolyl isomerase 3 [ Homo sapiens (human) ]

Gene ID: 2287, updated on 7-Apr-2024

Summary

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Official Symbol
FKBP3provided by HGNC
Official Full Name
FKBP prolyl isomerase 3provided by HGNC
Primary source
HGNC:HGNC:3719
See related
Ensembl:ENSG00000100442 MIM:186947; AllianceGenome:HGNC:3719
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
FKBP-3; FKBP25; PPIase; FKBP-25
Summary
The protein encoded by this gene is a member of the immunophilin protein family, which play a role in immunoregulation and basic cellular processes involving protein folding and trafficking. This encoded protein is a cis-trans prolyl isomerase that binds the immunosuppressants FK506 and rapamycin, as well as histone deacetylases, the transcription factor YY1, casein kinase II, and nucleolin. It has a higher affinity for rapamycin than for FK506 and thus may be an important target molecule for immunosuppression by rapamycin. [provided by RefSeq, Sep 2008]
Expression
Ubiquitous expression in brain (RPKM 15.6), prostate (RPKM 14.4) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
14q21.2
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (45115599..45134481, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (39307610..39327326, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (45584802..45603684, complement)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORD58 Neighboring gene pre-mRNA processing factor 39 Neighboring gene small nucleolar RNA, C/D box 127 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr14:45602882-45603753 and GRCh37_chr14:45603754-45604624 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8299 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8300 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8301 Neighboring gene FA complementation group M Neighboring gene NANOG hESC enhancer GRCh37_chr14:45667610-45668129 Neighboring gene MIS18 binding protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8302 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:45720005-45720504 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8303

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Esterase D stabilizes FKBP25 to suppress mTORC1. Yang Y, et al. Cell Mol Biol Lett, 2021 Dec 7. PMID 34875997, Free PMC Article
  2. FKBP25 participates in DNA double-strand break repair. Dilworth D, et al. Biochem Cell Biol, 2020 Feb. PMID 30620620, Free PMC Article
  3. The prolyl isomerase FKBP25 regulates microtubule polymerization impacting cell cycle progression and genomic stability. Dilworth D, et al. Nucleic Acids Res, 2018 Mar 16. PMID 29361176, Free PMC Article
  4. The basic tilted helix bundle domain of the prolyl isomerase FKBP25 is a novel double-stranded RNA binding module. Dilworth D, et al. Nucleic Acids Res, 2017 Nov 16. PMID 29036638, Free PMC Article
  5. Structural basis of nucleic acid recognition by FK506-binding protein 25 (FKBP25), a nuclear immunophilin. Prakash A, et al. Nucleic Acids Res, 2016 Apr 7. PMID 26762975, Free PMC Article

See all (82) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Knockdown of FKBP3 suppresses nasopharyngeal carcinoma cell growth, invasion and migration, deactivated NF-kappaB/IL-6 signaling pathway through inhibiting histone deacetylase 2 expression.
    Title: Knockdown of FKBP3 suppresses nasopharyngeal carcinoma cell growth, invasion and migration, deactivated NF-κB/IL-6 signaling pathway through inhibiting histone deacetylase 2 expression.
  2. Esterase D stabilizes FKBP25 to suppress mTORC1.
    Title: Esterase D stabilizes FKBP25 to suppress mTORC1.
  3. FKBP3 Induces Human Immunodeficiency Virus Type 1 Latency by Recruiting Histone Deacetylase 1/2 to the Viral Long Terminal Repeat.
    Title: FKBP3 Induces Human Immunodeficiency Virus Type 1 Latency by Recruiting Histone Deacetylase 1/2 to the Viral Long Terminal Repeat.
  4. The results identify FKBP25 as a component of the DNA double-strand breaks (DSB) repair pathway.
    Title: FKBP25 participates in DNA double-strand break repair.
  5. Results demonstrate that FKBP25 is a novel microtubule-associated protein that engages both nucleic acids and microtubules, and that these interactions are controlled by carefully timed phosphorylation events to ensure proper cell division and genome segregation.
    Title: The prolyl isomerase FKBP25 regulates microtubule polymerization impacting cell cycle progression and genomic stability.
  6. Taken together, these data clearly show that FKBP3/Sp1/HDAC2/p27 control cell proliferation during non-small cell lung cancer development.
    Title: FKBP3 Promotes Proliferation of Non-Small Cell Lung Cancer Cells through Regulating Sp1/HDAC2/p27.
  7. Data show that the N-terminus of FK506 binding protein-25 (FKBP25) is anchored to regions of dsRNA, whereas the FKBP domain is free to interact with neighboring proteins.
    Title: The basic tilted helix bundle domain of the prolyl isomerase FKBP25 is a novel double-stranded RNA binding module.
  8. Structural basis for nucleic acid recognition by FKBP25 has been uncovered.
    Title: Structural basis of nucleic acid recognition by FK506-binding protein 25 (FKBP25), a nuclear immunophilin.
  9. proteomics study indicates that the nuclear pool of the FKBP25 targets various nuclear proteins that are crucial for packaging of DNA, chromatin remodeling and pre-mRNA splicing
    Title: Rapamycin-binding FKBP25 associates with diverse proteins that form large intracellular entities.
  10. FKBP25 is likely recruited to preribosomes to chaperone one of the protein components of the ribosome large subunit.
    Title: The prolyl isomerase, FKBP25, interacts with RNA-engaged nucleolin and the pre-60S ribosomal subunit.
Submit: New GeneRIF Correction See all GeneRIFs (14)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables FK506 binding TAS
Traceable Author Statement
more info
 PubMed 
enables RNA binding HDA PubMed 
enables peptidyl-prolyl cis-trans isomerase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables signaling receptor activity TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
peptidyl-prolyl cis-trans isomerase FKBP3
Names
25 kDa FK506-binding protein
25 kDa FKBP
FK506 binding protein 3, 25kDa
FK506-binding protein 25, T-cell
FK506-binding protein 3
PPIase FKBP3
immunophilin FKBP25
rapamycin binding protein
rapamycin-selective 25 kDa immunophilin
rotamase
NP_002004.1
XP_011534867.1
XP_054231554.1
XP_054231555.1

NCBI Reference Sequences (RefSeq)

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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_002013.4 → NP_002004.1  peptidyl-prolyl cis-trans isomerase FKBP3

    See identical proteins and their annotated locations for NP_002004.1

    Status: REVIEWED

    Source sequence(s)
    BC020809, BI598048, CN315192
    Consensus CDS
    CCDS9683.1
    UniProtKB/Swiss-Prot
    B2R4Q9, Q00688, Q14317
    UniProtKB/TrEMBL
    Q53GD8
    Related
    ENSP00000379374.3, ENST00000396062.4
    Conserved Domains (2) summary
    pfam00254
    Location:124 → 221
    FKBP_C; FKBP-type peptidyl-prolyl cis-trans isomerase
    pfam18410
    Location:6 → 77
    BTHB; Basic tilted helix bundle domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    45115599..45134481 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011536565.4 → XP_011534867.1  peptidyl-prolyl cis-trans isomerase FKBP3 isoform X1

    UniProtKB/TrEMBL
    Q53GD8
    Conserved Domains (1) summary
    pfam00254
    Location:91 → 188
    FKBP_C; FKBP-type peptidyl-prolyl cis-trans isomerase

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    39307610..39327326 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054375579.1 → XP_054231554.1  peptidyl-prolyl cis-trans isomerase FKBP3 isoform X2

    UniProtKB/Swiss-Prot
    B2R4Q9, Q00688, Q14317

  2. XM_054375580.1 → XP_054231555.1  peptidyl-prolyl cis-trans isomerase FKBP3 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q00688.1 GenPept UniProtKB/Swiss-Prot:Q00688

Gene LinkOut

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