FKBP15

gene
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Also known as PPP1R76FKBP133WAFL

Summary

FKBP15 (FKBP prolyl isomerase family member 15, HGNC:23397) is a protein-coding gene on chromosome 9q32, encoding FK506-binding protein 15 (Q5T1M5). May be involved in the cytoskeletal organization of neuronal growth cones.

Predicted to enable actin binding activity and peptidyl-prolyl cis-trans isomerase activity. Predicted to be involved in endocytosis. Located in membrane.

Source: NCBI Gene 23307 — RefSeq curated summary.

At a glance

  • Clinical variants (ClinVar): 211 total
  • MANE Select transcript: NM_015258

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:23397
Approved symbolFKBP15
NameFKBP prolyl isomerase family member 15
Location9q32
Locus typegene with protein product
StatusApproved
AliasesPPP1R76, FKBP133, WAFL
Ensembl geneENSG00000119321
Ensembl biotypeprotein_coding
OMIM617398
Entrez23307

Gene structure

Transcript identifiers

Ensembl transcripts: 28 — 11 protein_coding, 10 nonsense_mediated_decay, 6 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000238256, ENST00000414250, ENST00000446284, ENST00000462889, ENST00000489645, ENST00000493847, ENST00000685068, ENST00000685945, ENST00000686727, ENST00000686828, ENST00000687395, ENST00000688113, ENST00000688949, ENST00000689059, ENST00000689480, ENST00000690399, ENST00000690630, ENST00000691254, ENST00000691776, ENST00000691917, ENST00000692890, ENST00000693271, ENST00000693409, ENST00000852798, ENST00000852799, ENST00000937400, ENST00000937401, ENST00000947249

RefSeq mRNA: 1 — MANE Select: NM_015258 NM_015258

CCDS: CCDS48007

Canonical transcript exons

ENST00000238256 — 28 exons

ExonStartEnd
ENSE00001691631113221191113221277
ENSE00003473361113211477113211592
ENSE00003479758113207212113207296
ENSE00003548766113186249113186363
ENSE00003549454113184695113184804
ENSE00003657296113187793113187899
ENSE00003678475113184292113184399
ENSE00003889744113173453113173605
ENSE00003889787113183751113183845
ENSE00003889969113202961113203035
ENSE00003890390113174428113174583
ENSE00003890565113171581113171706
ENSE00003890940113169224113169942
ENSE00003891780113161006113166155
ENSE00003891833113176537113176673
ENSE00003892068113193492113193549
ENSE00003892157113194027113194169
ENSE00003892217113182766113182868
ENSE00003892412113198855113198923
ENSE00003892649113178630113178801
ENSE00003892809113190471113190578
ENSE00003893890113188389113188491
ENSE00003894195113199814113199963
ENSE00003894511113202531113202629
ENSE00003894545113206509113206578
ENSE00003894915113170522113170629
ENSE00003895312113196932113197078
ENSE00003895937113168460113168556

Expression profiles

Bgee: expression breadth ubiquitous, 293 present calls, max score 95.01.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 33.7676 / max 247.0974, expressed in 1819 samples.

FANTOM5 promoters (8 alternative TSS)

Promoter IDTPM avgSamples expressed
10208916.40211807
1020907.67081768
1020923.24421467
1020862.9359542
1020931.1845716
1020911.1322629
1020870.8200179
1020850.3779118

Top tissues by expression

299 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
monocyteCL:000057695.01gold quality
mononuclear cellCL:000084295.01gold quality
leukocyteCL:000073894.76gold quality
olfactory bulbUBERON:000226493.14gold quality
CA1 field of hippocampusUBERON:000388192.30gold quality
granulocyteCL:000009492.08gold quality
type B pancreatic cellCL:000016992.07gold quality
cardia of stomachUBERON:000116291.46gold quality
bloodUBERON:000017891.32gold quality
superficial temporal arteryUBERON:000161490.96gold quality
cervix squamous epitheliumUBERON:000692290.57gold quality
lateral globus pallidusUBERON:000247690.54gold quality
pharyngeal mucosaUBERON:000035590.49gold quality
subthalamic nucleusUBERON:000190690.41gold quality
trabecular bone tissueUBERON:000248390.30gold quality
mucosa of paranasal sinusUBERON:000503089.95gold quality
diaphragmUBERON:000110389.94gold quality
vena cavaUBERON:000408789.84silver quality
inferior vagus X ganglionUBERON:000536389.79gold quality
superior surface of tongueUBERON:000737189.68gold quality
hair follicleUBERON:000207389.67silver quality
pylorusUBERON:000116689.41gold quality
cervix epitheliumUBERON:000480189.28gold quality
mucosa of urinary bladderUBERON:000125989.25gold quality
penisUBERON:000098989.09gold quality
dorsal plus ventral thalamusUBERON:000189789.09gold quality
ventral tegmental areaUBERON:000269189.04gold quality
synovial jointUBERON:000221788.86gold quality
body of tongueUBERON:001187688.84gold quality
tongueUBERON:000172388.79gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 3.

ExperimentMarker?Max mean expression
E-CURD-112yes13.97
E-MTAB-9543yes13.69
E-ANND-3yes12.75

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

32 targeting FKBP15, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4283100.0066.422097
HSA-MIR-318599.9968.121959
HSA-MIR-19B-3P99.9875.442754
HSA-MIR-19A-3P99.9875.332762
HSA-MIR-1468-3P99.9672.743797
HSA-MIR-391099.9571.132227
HSA-MIR-806399.9169.763146
HSA-MIR-124-3P99.8973.743043
HSA-MIR-506-3P99.8973.553057
HSA-MIR-7856-5P99.7569.992901
HSA-MIR-6764-5P99.7567.892304
HSA-MIR-371499.7170.742671
HSA-MIR-1915-3P99.5866.791988
HSA-MIR-797499.2465.481137
HSA-MIR-4477B99.2370.491733
HSA-MIR-296-3P99.2166.56474
HSA-MIR-452899.1869.771936
HSA-MIR-877-3P99.0968.101637
HSA-MIR-316899.0867.751384
HSA-MIR-62298.9966.481050
HSA-MIR-4709-3P98.8868.041594
HSA-MIR-6754-3P98.8466.60889
HSA-MIR-463598.7467.631339
HSA-MIR-6761-5P98.7168.031504
HSA-MIR-6840-3P98.6865.951923
HSA-MIR-4726-3P98.4963.891385
HSA-MIR-6867-3P98.1266.071305
HSA-MIR-428797.5567.241247
HSA-MIR-4685-3P97.5567.351255
HSA-MIR-64397.3567.91805

Literature-anchored findings (GeneRIF, showing 2)

  • findings are compatible with a model whereby WAFL is involved in the transport of early endosomes at the level of transition between microfilament-based and microtubule-based movement. (PMID:19121306)
  • WAFL may play an important role in endocytosis and subsequent membrane trafficking by interacting with AP2 through KIAA0196 and KIAA1033 (PMID:20376207)

Cross-species orthologs

6 orthologs

OrganismSymbolGene ID
danio_reriofkbp15aENSDARG00000095142
danio_reriofkbp15bENSDARG00000099294
mus_musculusFkbp15ENSMUSG00000066151
rattus_norvegicusFkbp15ENSRNOG00000024663
caenorhabditis_elegansWBGENE00001429
caenorhabditis_elegansfkb-5WBGENE00001430

Paralogs (18): FKBP4 (ENSG00000004478), FKBP6 (ENSG00000077800), FKBP7 (ENSG00000079150), FKBP1A (ENSG00000088832), FKBP5 (ENSG00000096060), FKBP3 (ENSG00000100442), FKBP8 (ENSG00000105701), FKBP14 (ENSG00000106080), FKBP1B (ENSG00000119782), FKBP9 (ENSG00000122642), TTC9 (ENSG00000133985), FKBP11 (ENSG00000134285), FKBP10 (ENSG00000141756), TTC9C (ENSG00000162222), FKBP2 (ENSG00000173486), TTC9B (ENSG00000174521), FKBP1C (ENSG00000198225), FKBPL (ENSG00000204315)

Protein

Protein identifiers

FK506-binding protein 15Q5T1M5 (reviewed: Q5T1M5)

Alternative names: 133 kDa FK506-binding protein, WASP- and FKBP-like protein

All UniProt accessions (11): A0A8I5KQM8, A0A8I5KRH4, A0A8I5KRZ8, A0A8I5KUP6, A0A8I5KV70, A0A8I5KX71, A0A8I5KXA6, Q5T1M5, A0A8I5KXH0, A0A8I5QJ94, A0A8I5QJL3

UniProt curated annotations — full annotation on UniProt →

Function. May be involved in the cytoskeletal organization of neuronal growth cones. Seems to be inactive as a PPIase. Involved in the transport of early endosomes at the level of transition between microfilament-based and microtubule-based movement.

Subunit / interactions. Interacts with WIP and actin. Interacts with TBC1D23.

Subcellular location. Cytoplasm. Cell projection. Axon. Early endosome.

Domain organisation. The PPIase FKBP-type domain seems to be inactive both for FK506-binding and enzymatic activity. The central coiled-coil region is responsible for association with early endosomes.

Similarity. Belongs to the FKBP-type PPIase family.

Isoforms (3)

UniProt IDNamesCanonical?
Q5T1M5-11yes
Q5T1M5-22
Q5T1M5-33

RefSeq proteins (1): NP_056073* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001179PPIase_FKBP_domDomain
IPR046357PPIase_dom_sfHomologous_superfamily
IPR056598FKBP-15_domDomain

Pfam: PF00254, PF23649

UniProt features (54 total): modified residue 29, compositionally biased region 6, region of interest 6, sequence variant 5, coiled-coil region 3, splice variant 3, chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q5T1M5-F164.810.30

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (29): 1, 14, 23, 92, 307, 311, 326, 344, 346, 356, 619, 939, 940, 941, 956, 979, 1024, 1056, 1061, 1065 …

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 139 (showing top): RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP, GOBP_VESICLE_MEDIATED_TRANSPORT, RICKMAN_TUMOR_DIFFERENTIATED_WELL_VS_POORLY_DN, GNF2_MYD88, MORF_PML, GOMF_ACTIN_BINDING, SENESE_HDAC1_TARGETS_UP, GOCC_NEURON_PROJECTION, MARTINEZ_RESPONSE_TO_TRABECTEDIN_DN, MORF_IKBKG, GOBP_IMPORT_INTO_CELL, GOBP_ENDOCYTOSIS, OSMAN_BLADDER_CANCER_DN, MARSON_BOUND_BY_E2F4_UNSTIMULATED, GOCC_AXON

GO Biological Process (1): endocytosis (GO:0006897)

GO Molecular Function (4): peptidyl-prolyl cis-trans isomerase activity (GO:0003755), actin binding (GO:0003779), protein binding (GO:0005515), isomerase activity (GO:0016853)

GO Cellular Component (8): early endosome (GO:0005769), actin cytoskeleton (GO:0015629), membrane (GO:0016020), growth cone (GO:0030426), cytoplasm (GO:0005737), endosome (GO:0005768), axon (GO:0030424), cell projection (GO:0042995)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure3
vesicle budding from membrane1
membrane invagination1
vesicle-mediated transport1
import into cell1
cis-trans isomerase activity1
catalytic activity, acting on a protein1
cytoskeletal protein binding1
binding1
catalytic activity1
endosome1
cytoskeleton1
site of polarized growth1
distal axon1
intracellular anatomical structure1
endomembrane system1
cytoplasmic vesicle1
neuron projection1

Protein interactions and networks

STRING

1022 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
FKBP15WASHC4Q2M389739
FKBP15TBC1D5Q92609709
FKBP15WASHC5Q12768705
FKBP15WASHC2CQ9Y4E1705
FKBP15VPS29Q9UBQ0591
FKBP15WASHC2AQ641Q2585
FKBP15CAPZA1P52907550
FKBP15WASHC1A8K0Z3536
FKBP15TBC1D23Q9NUY8534
FKBP15CCDC93Q567U6520
FKBP15FKBP7Q9Y680513
FKBP15CCDC22O60826496
FKBP15EHD1Q9H4M9491
FKBP15TCP10LQ8TDR4487
FKBP15WASHC3Q9Y3C0461

IntAct

84 interactions, top by confidence:

ABTypeScore
STRN3STRNpsi-mi:“MI:2364”(proximity)0.880
VPS29VPS26Cpsi-mi:“MI:0914”(association)0.760
WWOXENTREP3psi-mi:“MI:0914”(association)0.720
CFTRESYT2psi-mi:“MI:2364”(proximity)0.710
FKBP15VPS35psi-mi:“MI:0403”(colocalization)0.640
WWOXDVL2psi-mi:“MI:0914”(association)0.560
Vps29FKBP15psi-mi:“MI:0915”(physical association)0.550
repSLC27A2psi-mi:“MI:0914”(association)0.530
STX11EXOC5psi-mi:“MI:0914”(association)0.530
NUP62RGPD8psi-mi:“MI:0914”(association)0.530
BAG2HGSpsi-mi:“MI:0914”(association)0.530
COMMD10VPS26Cpsi-mi:“MI:0914”(association)0.530
ITPRID2PIGRpsi-mi:“MI:0914”(association)0.530
ZYXTBC1D10Bpsi-mi:“MI:0914”(association)0.530
WASHC3WASH3Ppsi-mi:“MI:0914”(association)0.530
ITPRID2CBLpsi-mi:“MI:0914”(association)0.530
AIPL1SUPT5Hpsi-mi:“MI:0914”(association)0.510
FKBP15Vps35psi-mi:“MI:0915”(physical association)0.480
Vps35FKBP15psi-mi:“MI:0915”(physical association)0.480
PPP1CAFKBP15psi-mi:“MI:0407”(direct interaction)0.440
FKBP15WASHC1psi-mi:“MI:0403”(colocalization)0.430
FKBP15DPEP1psi-mi:“MI:0915”(physical association)0.400
FKBP15WASHC2Cpsi-mi:“MI:0915”(physical association)0.370
FKBP15FKBP15psi-mi:“MI:0915”(physical association)0.370
CTR9POLR2Bpsi-mi:“MI:0914”(association)0.350

BioGRID (143): FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Proximity Label-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), FKBP15 (Affinity Capture-MS), KIAA0196 (Affinity Capture-Western), FKBP15 (Affinity Capture-Western), KIAA1033 (Affinity Capture-MS), TTBK2 (Affinity Capture-MS), KIAA0196 (Affinity Capture-MS)

ESM2 similar proteins: A0A7P0TBJ1, A0A804C8T0, A1YB07, A2RRV3, A4IG66, A4IIE8, D4A4K3, O35625, O70239, P57095, Q02225, Q08AY9, Q09YK4, Q09YM8, Q0VDN7, Q108T9, Q1JPG0, Q1LXR6, Q2IBF8, Q2KJD6, Q2QL82, Q2QLF8, Q2QLG9, Q32N92, Q503U3, Q58D79, Q5BLE2, Q5T1M5, Q5XJS0, Q62141, Q6DFB7, Q6GR21, Q6NRB7, Q6P7D5, Q6P9Q6, Q7L4E1, Q86YS3, Q8BHS8, Q8BK03, Q8BQP8

Diamond homologs: G0SC91, O04287, O42123, O42993, O46638, O60046, O74191, O94746, P0A0W2, P0A0W3, P0C1B0, P0C1J3, P0C1J5, P0C1J6, P0C1J7, P0CP94, P0CP95, P0CP96, P0CP97, P0CP98, P0CP99, P0CY37, P18203, P20080, P20081, P26883, P26884, P26885, P27124, P30416, P38911, P45878, P48375, P54397, P56989, P62942, P62943, P68106, P68107, P97534

SIGNOR signaling

2 interactions.

AEffectBMechanism
FKBP15“up-regulates activity”ACTBbinding
FKBP15“up-regulates activity”WIPF1binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 97 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

GO biological processes:

GO termPartnersFoldFDR
endocytic recycling723.1×1e-05
retrograde transport, endosome to Golgi717.8×2e-05
exocytosis815.0×2e-05
protein transport116.0×3e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

211 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance160
Likely benign12
Benign2

Top pathogenic / likely-pathogenic (0)

SpliceAI

4242 predictions. Top by Δscore:

VariantEffectΔscore
9:113168557:C:CCacceptor_gain1.0000
9:113169939:CCAT:Cacceptor_gain1.0000
9:113169940:CATC:Cacceptor_gain1.0000
9:113169943:C:CCacceptor_gain1.0000
9:113170516:CTGTA:Cdonor_loss1.0000
9:113170517:TGTA:Tdonor_loss1.0000
9:113170518:GTAC:Gdonor_loss1.0000
9:113170519:TA:Tdonor_loss1.0000
9:113170521:C:CTdonor_loss1.0000
9:113170625:TTGAC:Tacceptor_gain1.0000
9:113170626:TGAC:Tacceptor_gain1.0000
9:113170627:GAC:Gacceptor_gain1.0000
9:113170628:AC:Aacceptor_gain1.0000
9:113170629:CCTG:Cacceptor_gain1.0000
9:113170630:C:CAacceptor_loss1.0000
9:113170630:C:CCacceptor_gain1.0000
9:113170631:T:Cacceptor_loss1.0000
9:113170632:G:Cacceptor_gain1.0000
9:113170632:G:GCacceptor_gain1.0000
9:113170634:G:Cacceptor_gain1.0000
9:113170639:C:CTacceptor_gain1.0000
9:113170640:A:Tacceptor_gain1.0000
9:113171576:CTCA:Cdonor_loss1.0000
9:113171577:TCA:Tdonor_loss1.0000
9:113171578:CA:Cdonor_loss1.0000
9:113171579:A:Tdonor_loss1.0000
9:113171580:C:CAdonor_loss1.0000
9:113171580:CCTT:Cdonor_gain1.0000
9:113171702:AAACA:Aacceptor_gain1.0000
9:113171703:AACA:Aacceptor_gain1.0000

AlphaMissense

7958 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
9:113197035:C:GR254P0.998
9:113202581:A:GW150R0.998
9:113202581:A:TW150R0.998
9:113207227:A:TV80D0.998
9:113182780:C:GA634P0.997
9:113183769:A:GL598P0.997
9:113202578:A:GS151P0.997
9:113206534:A:TV100D0.997
9:113206538:C:GA99P0.997
9:113184705:A:GL533P0.996
9:113176565:A:GL732P0.995
9:113190544:C:GR367P0.995
9:113190553:A:GL364S0.995
9:113199953:G:TA170D0.995
9:113178774:C:GA648P0.994
9:113190539:C:GA369P0.994
9:113190541:A:GM368T0.994
9:113190550:A:GI365T0.994
9:113190550:A:TI365N0.994
9:113198887:G:TR229S0.994
9:113202541:A:GF163S0.994
9:113207221:G:TA82E0.994
9:113184302:C:GR569P0.993
9:113202598:T:AD144V0.993
9:113202599:C:GD144H0.993
9:113176574:A:GL729P0.992
9:113184739:C:GA522P0.992
9:113190538:G:TA369D0.992
9:113190550:A:CI365S0.992
9:113202567:A:CF154L0.992

dbSNP variants (sampled 300 via entrez): RS1000063211 (9:113212751 C>T), RS1000092763 (9:113167206 T>C), RS1000097616 (9:113212990 T>C), RS1000118432 (9:113162019 G>C), RS1000165771 (9:113212390 T>C), RS1000167199 (9:113173836 G>A,T), RS1000202125 (9:113219007 A>G), RS1000222147 (9:113185382 C>T), RS1000262391 (9:113174297 A>T), RS1000281414 (9:113212595 CTT>C), RS1000413814 (9:113206713 T>A,C), RS1000445174 (9:113174802 A>G), RS1000503265 (9:113166215 C>T), RS1000658150 (9:113188803 T>C), RS1000774911 (9:113172900 G>C)

Disease associations

OMIM: gene MIM:617398 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

PharmGKB variants

4 variants.

VariantGenesLevelScore#Clin annotsDrugs
rs10981694FKBP15, SLC31A130.501cisplatin
rs4979223FKBP15, SLC31A135.751Platinum compounds
rs4978536FKBP15, SLC31A132.501Platinum compounds
rs2233914FKBP15, SLC31A135.501Platinum compounds

CTD chemical–gene interactions

30 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
bisphenol Adecreases expression, decreases methylation2
sodium arseniteincreases abundance, increases expression2
Cadmium Chlorideincreases expression2
FR900359affects phosphorylation1
bisphenol Faffects cotreatment, increases expression1
sodium arsenatedecreases expression1
mono-(2-ethylhexyl)phthalatedecreases expression1
manganese chlorideincreases abundance, increases expression1
coumarinaffects phosphorylation1
di-n-butylphosphoric acidaffects expression1
abrineincreases expression1
Air Pollutants, Occupationaldecreases expression1
Arsenicincreases abundance, increases expression1
Caffeineincreases phosphorylation1
Dexamethasoneincreases expression, affects cotreatment1
Doxorubicindecreases expression1
Enzyme Inhibitorsdecreases activity, increases O-linked glycosylation1
Formaldehydedecreases expression1
Indomethacinaffects cotreatment, increases expression1
Ivermectindecreases expression1
Manganeseincreases abundance, increases expression1
Methamphetamineaffects response to substance1
Nickeldecreases expression1
Tretinoinincreases expression1
Valproic Aciddecreases methylation1
1-Methyl-3-isobutylxanthineaffects cotreatment, increases expression1
Cyclosporineincreases expression1
Aflatoxin B1decreases methylation1
Antirheumatic Agentsdecreases expression1
Palmitic Aciddecreases phosphorylation1

Cellosaurus cell lines

2 cell lines: 2 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_SN59HAP1 FKBP15 (-) 1Cancer cell lineMale
CVCL_SN60HAP1 FKBP15 (-) 2Cancer cell lineMale

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.