ANKRD52

gene
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Also known as FLJ34236PP6-ARS-C

Summary

ANKRD52 (ankyrin repeat domain 52, HGNC:26614) is a protein-coding gene on chromosome 12q13.3, encoding Serine/threonine-protein phosphatase 6 regulatory ankyrin repeat subunit C (Q8NB46). Putative regulatory subunit of protein phosphatase 6 (PP6) that may be involved in the recognition of phosphoprotein substrates. It is a selective cancer dependency (DepMap: 13.6% of cell lines).

At a glance

  • GWAS associations: 4
  • Clinical variants (ClinVar): 119 total — 1 pathogenic
  • Druggable target: yes — 1 molecules with ChEMBL bioactivity
  • Cancer dependency (DepMap): dependent in 13.6% of screened cell lines
  • MANE Select transcript: NM_173595

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:26614
Approved symbolANKRD52
Nameankyrin repeat domain 52
Location12q13.3
Locus typegene with protein product
StatusApproved
AliasesFLJ34236, PP6-ARS-C
Ensembl geneENSG00000139645
Ensembl biotypeprotein_coding
OMIM620862
Entrez283373

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 4 retained_intron, 3 protein_coding_CDS_not_defined, 1 protein_coding

ENST00000267116, ENST00000548081, ENST00000548241, ENST00000551023, ENST00000680026, ENST00000680693, ENST00000680755, ENST00000681390

RefSeq mRNA: 1 — MANE Select: NM_173595 NM_173595

CCDS: CCDS44920

Canonical transcript exons

ENST00000267116 — 28 exons

ExonStartEnd
ENSE000012815125623780756243392
ENSE000015045785625701556257085
ENSE000015045795625728356257361
ENSE000015045805625782856257911
ENSE000015967135624802356248224
ENSE000016029095624768756247774
ENSE000016222315624490656244989
ENSE000016328705625217556252315
ENSE000016417065624849556248566
ENSE000016807205624537756245596
ENSE000016817405625300456253086
ENSE000016838265625250256252570
ENSE000016887915625372256253800
ENSE000016999115624875956248870
ENSE000017025485624510356245190
ENSE000017291915625328856253402
ENSE000017304705624465256244797
ENSE000017469025624749356247610
ENSE000017645675625201556252095
ENSE000017802345625278056252897
ENSE000023023295625406756254279
ENSE000023716905625824356258384
ENSE000034597015625457856254720
ENSE000034751115624435356244435
ENSE000034803165624378556243876
ENSE000035130025625486556254952
ENSE000036299375624405156244133
ENSE000036389675625578456255984

Expression profiles

Bgee: expression breadth ubiquitous, 191 present calls, max score 91.14.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 18.2970 / max 117.4627, expressed in 1800 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
13149817.63851798
1314970.3411142
1314990.3173164

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
stromal cell of endometriumCL:000225591.14gold quality
lateral nuclear group of thalamusUBERON:000273688.86silver quality
right adrenal glandUBERON:000123388.74gold quality
right adrenal gland cortexUBERON:003582788.68gold quality
substantia nigra pars reticulataUBERON:000196688.53silver quality
nasal cavity epitheliumUBERON:000538488.16gold quality
adrenal cortexUBERON:000123588.00gold quality
left adrenal gland cortexUBERON:003582587.96gold quality
left adrenal glandUBERON:000123487.95gold quality
upper arm skinUBERON:000426387.40gold quality
adrenal glandUBERON:000236987.05gold quality
right hemisphere of cerebellumUBERON:001489086.31gold quality
gastrocnemiusUBERON:000138886.12gold quality
adrenal tissueUBERON:001830386.02gold quality
kidney epitheliumUBERON:000481986.00gold quality
muscle of legUBERON:000138385.84gold quality
cerebellar cortexUBERON:000212985.70gold quality
cerebellar hemisphereUBERON:000224585.69gold quality
cerebellumUBERON:000203785.11gold quality
islet of LangerhansUBERON:000000684.66gold quality
apex of heartUBERON:000209884.42gold quality
cerebellar vermisUBERON:000472084.23silver quality
granulocyteCL:000009484.11gold quality
metanephros cortexUBERON:001053383.95gold quality
hindlimb stylopod muscleUBERON:000425283.79gold quality
prefrontal cortexUBERON:000045183.65gold quality
lower esophagusUBERON:001347383.64gold quality
lower esophagus muscularis layerUBERON:003583383.64gold quality
body of uterusUBERON:000985383.43gold quality
ventral tegmental areaUBERON:000269183.40gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

ExperimentMarker?Max mean expression
E-ANND-3no3.49

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

344 targeting ANKRD52, 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-4747-5P100.0067.902681
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-4481100.0066.421669
HSA-MIR-4262100.0073.263931
HSA-MIR-4673100.0066.641490
HSA-MIR-29A-3P100.0073.111835
HSA-MIR-29B-3P100.0073.181833
HSA-MIR-29C-3P100.0073.151833
HSA-MIR-9-5P100.0072.282361
HSA-MIR-4283100.0066.422097
HSA-MIR-8485100.0077.574731
HSA-MIR-4510100.0066.602050
HSA-MIR-6127100.0066.762188
HSA-MIR-6798-5P100.0065.77699
HSA-MIR-7110-3P100.0073.182486
HSA-MIR-6129100.0066.462080
HSA-MIR-6130100.0066.692012
HSA-MIR-6133100.0066.482064
HSA-MIR-574-5P100.0066.01989
HSA-MIR-5692A100.0074.406850
HSA-MIR-34A-5P99.9971.211784
HSA-MIR-449A99.9971.051776
HSA-MIR-6870-5P99.9968.552115
HSA-MIR-450099.9972.722367
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-453199.9969.703181
HSA-MIR-4645-5P99.9865.811284

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 13.6% of screened cell lines.

Literature-anchored findings (GeneRIF, showing 3)

  • ANKRD52 mediates the PP6-ASK3 interaction and, consequently, ASK3 inactivation under hyperosmotic stress. (PMID:29539411)
  • TAZ negatively regulates the novel tumor suppressor ANKRD52 and promotes PAK1 dephosphorylation in lung adenocarcinomas. (PMID:33096142)
  • ANKRD52 condensates are not completely colocalized with ASK3 condensates, but they move around and grow while sharing their phase boundaries. (PMID:33649309)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_rerioankrd52aENSDARG00000036826
mus_musculusAnkrd52ENSMUSG00000014498
rattus_norvegicusAnkrd52ENSRNOG00000030597

Paralogs (3): ANKRD44 (ENSG00000065413), ANKRD55 (ENSG00000164512), ANKRD28 (ENSG00000206560)

Protein

Protein identifiers

Serine/threonine-protein phosphatase 6 regulatory ankyrin repeat subunit CQ8NB46 (reviewed: Q8NB46)

Alternative names: Ankyrin repeat domain-containing protein 52

All UniProt accessions (1): Q8NB46

UniProt curated annotations — full annotation on UniProt →

Function. Putative regulatory subunit of protein phosphatase 6 (PP6) that may be involved in the recognition of phosphoprotein substrates.

Subunit / interactions. Protein phosphatase 6 (PP6) holoenzyme is proposed to be a heterotrimeric complex formed by the catalytic subunit, a SAPS domain-containing subunit (PP6R) and an ankyrin repeat-domain containing regulatory subunit (ARS). Interacts with PPP6R1.

RefSeq proteins (1): NP_775866* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR002110Ankyrin_rptRepeat
IPR036770Ankyrin_rpt-contain_sfHomologous_superfamily
IPR050889Dendritic_Spine_Reg/ScaffoldFamily

Pfam: PF00023, PF12796, PF13637

UniProt features (35 total): repeat 28, modified residue 2, sequence conflict 2, chain 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q8NB46-F185.710.69

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 (2): 1028, 1075

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 0 (showing top):

GO Biological Process (0):

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (0):

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
binding1

Protein interactions and networks

STRING

1930 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ANKRD52PPP6CO00743838
ANKRD52PPP6R1Q9UPN7683
ANKRD52PAIP2Q9BPZ3671
ANKRD52EIF3JO75822657
ANKRD52PPP6R2O75170657
ANKRD52SIRT7Q9NRC8653
ANKRD52PPP6R3Q5H9R7591
ANKRD52ZNF609O15014573
ANKRD52MBNL3Q9NUK0552
ANKRD52MBNL2Q5VZF2531
ANKRD52MBNL1Q9NR56515
ANKRD52HIPK3Q9H422502
ANKRD52FAM133BQ5BKY9476
ANKRD52SHPRHQ149N8466
ANKRD52FMNL2Q96PY5462

IntAct

92 interactions, top by confidence:

ABTypeScore
CDK4CDKN2Cpsi-mi:“MI:0914”(association)0.970
PPP6R1PPP6Cpsi-mi:“MI:0914”(association)0.920
PPP6CANKRD28psi-mi:“MI:0914”(association)0.870
ANKRD28PPP6Cpsi-mi:“MI:0914”(association)0.870
PPP6R2PPP6Cpsi-mi:“MI:0914”(association)0.870
HIF1ANAPBA3psi-mi:“MI:0914”(association)0.850
ANKRD52PPP6Cpsi-mi:“MI:0914”(association)0.790
PKN3ARHGAP10psi-mi:“MI:0914”(association)0.680
ANKRD52PPP6R1psi-mi:“MI:0914”(association)0.670
FOXK2DVL2psi-mi:“MI:0914”(association)0.640
HIF1ANGMDSpsi-mi:“MI:0914”(association)0.640
USP10ANKRD28psi-mi:“MI:0914”(association)0.610
PLK1C1orf226psi-mi:“MI:0914”(association)0.560
KIF2BBACH1psi-mi:“MI:0914”(association)0.530
ZNF223PPM1Gpsi-mi:“MI:0914”(association)0.530
ZNF669LRP4psi-mi:“MI:0914”(association)0.530
GREM2ZZEF1psi-mi:“MI:0914”(association)0.530
CPNE5RAD21psi-mi:“MI:0914”(association)0.530
ZNF223CENPBpsi-mi:“MI:0914”(association)0.530
MOB1BPPP6Cpsi-mi:“MI:2364”(proximity)0.480
Ppp6r3PPP6Cpsi-mi:“MI:0914”(association)0.420
MOB1APPP6Cpsi-mi:“MI:2364”(proximity)0.420
Ppp6r3PPP6Cpsi-mi:“MI:2364”(proximity)0.420

BioGRID (137): ANKRD52 (Affinity Capture-RNA), ANKRD52 (Affinity Capture-RNA), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Proximity Label-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS), ANKRD52 (Affinity Capture-MS)

ESM2 similar proteins: A2AS55, B2RXR6, O15084, O75832, P0C927, Q08DV6, Q0P5B9, Q29RM5, Q2TB02, Q3SX45, Q495B1, Q499M5, Q4V890, Q502K3, Q505D1, Q53RE8, Q5F478, Q5RFS1, Q5U2S6, Q5ZLC8, Q6GPE5, Q6P6B7, Q6P9Z4, Q70X92, Q7T3P8, Q810B6, Q8BTI7, Q8C0T1, Q8C6Y6, Q8K0L0, Q8N8A2, Q8NB46, Q8NI38, Q8WXH4, Q91ZT8, Q96AX9, Q96DX5, Q96NS5, Q96Q27, Q9BSK4

Diamond homologs: A2ARS0, B2RXR6, C7B178, C9JTQ0, P0C927, P19838, Q00PJ3, Q07E43, Q08353, Q21920, Q29RM5, Q2QL84, Q337A0, Q3KP44, Q3SX00, Q3UES3, Q3UUF8, Q4FE45, Q4JHE0, Q4V890, Q502K3, Q5R8C8, Q5ZLC8, Q60J38, Q6KAE5, Q6TNT2, Q76K24, Q7EZ44, Q86W74, Q86WC6, Q8BTI7, Q8BTZ5, Q8C0T1, Q8NB46, Q8VHS5, Q9BSK4, Q9D119, Q9H2K2, Q9N3Q8, Q9Z2G1

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 103 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
autophagosome assembly512.6×7e-03
protein dephosphorylation512.5×7e-03
protein phosphorylation86.1×7e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance91
Likely benign1
Benign2

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
4280325NC_000012.12:g.56173943_56407078invPathogenic

SpliceAI

3613 predictions. Top by Δscore:

VariantEffectΔscore
12:56243391:ACCT:Aacceptor_loss1.0000
12:56243393:C:CCacceptor_gain1.0000
12:56243393:C:CGacceptor_loss1.0000
12:56243780:CCCA:Cdonor_loss1.0000
12:56243782:CACCT:Cdonor_loss1.0000
12:56243783:A:Tdonor_loss1.0000
12:56243784:C:CAdonor_loss1.0000
12:56243874:GGC:Gacceptor_gain1.0000
12:56243876:CC:Cacceptor_loss1.0000
12:56243876:CCT:Cacceptor_gain1.0000
12:56243877:C:CAacceptor_loss1.0000
12:56243877:C:CCacceptor_gain1.0000
12:56243878:T:Aacceptor_loss1.0000
12:56243878:T:Cacceptor_gain1.0000
12:56243878:T:TCacceptor_gain1.0000
12:56244047:TCACA:Tdonor_loss1.0000
12:56244049:A:ACdonor_gain1.0000
12:56244049:A:Cdonor_loss1.0000
12:56244050:C:CAdonor_gain1.0000
12:56244050:CA:Cdonor_gain1.0000
12:56244050:CAT:Cdonor_gain1.0000
12:56244050:CATCT:Cdonor_gain1.0000
12:56244129:TGGCC:Tacceptor_gain1.0000
12:56244130:GGCC:Gacceptor_gain1.0000
12:56244131:GCC:Gacceptor_gain1.0000
12:56244132:CC:Cacceptor_gain1.0000
12:56244132:CCC:Cacceptor_gain1.0000
12:56244133:CC:Cacceptor_gain1.0000
12:56244134:C:CAacceptor_loss1.0000
12:56244134:C:CCacceptor_gain1.0000

AlphaMissense

6998 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
12:56248091:A:GL637P1.000
12:56248091:A:TL637H1.000
12:56248190:A:GL604P1.000
12:56248508:G:TP588H1.000
12:56248565:A:GL569P1.000
12:56248781:C:AG561V1.000
12:56248790:G:TA558D1.000
12:56252514:T:AD453V1.000
12:56252547:A:GL442P1.000
12:56252558:A:CC438W1.000
12:56252560:A:GC438R1.000
12:56252789:G:TA431D1.000
12:56252792:G:TA430D1.000
12:56252803:A:CC426W1.000
12:56252804:C:TC426Y1.000
12:56252805:A:GC426R1.000
12:56252810:C:GR424P1.000
12:56252811:G:TR424S1.000
12:56252822:T:AD420V1.000
12:56252823:C:AD420Y1.000
12:56252823:C:GD420H1.000
12:56252839:A:CF414L1.000
12:56252839:A:TF414L1.000
12:56252841:A:GF414L1.000
12:56253012:A:GL392P1.000
12:56253015:A:GL391P1.000
12:56253021:C:GR389P1.000
12:56253023:A:CC388W1.000
12:56253026:A:CC387W1.000
12:56253027:C:TC387Y1.000

dbSNP variants (sampled 300 via entrez): RS1000156605 (12:56249079 C>G), RS1000393735 (12:56245525 A>G), RS1000789373 (12:56240517 C>T), RS1000827861 (12:56245915 C>G), RS1000883162 (12:56244632 C>A,T), RS1000925149 (12:56240802 T>C), RS1000937845 (12:56257771 G>C,T), RS1001115092 (12:56250746 A>AG), RS1001285047 (12:56238243 C>T), RS1001344263 (12:56241913 G>A), RS1001349637 (12:56249914 C>T), RS1001400768 (12:56250369 T>G), RS1001540634 (12:56259159 G>A), RS1001661350 (12:56259436 C>T), RS1001738054 (12:56238439 C>A)

Disease associations

OMIM: gene MIM:620862 | disease phenotypes: MIM:618362

GenCC curated gene-disease

Mondo (1): Coffin-Siris syndrome 8 (MONDO:0032702)

Orphanet (0):

HPO phenotypes

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

GWAS associations

4 associations (top):

StudyTraitp-value
GCST007325_254General risk tolerance (MTAG)2.000000e-09
GCST010002_217Refractive error6.000000e-174
GCST011972_40Height8.000000e-52
GCST90090967_20Height9.000000e-13

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0008579risk-taking behaviour

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL4105922 (SINGLE PROTEIN)

Molecules with ChEMBL bioactivity

1 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 1,538 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

MoleculeNamePhasePatents
CHEMBL1232461MOLIBRESIB21,538

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

ChEMBL bioactivities

1 potent at pChembl≥5 of 1 total, top 1 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
5.70IC502020nMMOLIBRESIB

PubChem BioAssay actives

1 with measured affinity, of 8 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
2-[(4S)-6-(4-chlorophenyl)-8-methoxy-1-methyl-4H-[1,2,4]triazolo[4,3-a][1,4]benzodiazepin-4-yl]-N-ethylacetamide2178746: Inhibition of ANKRD52 (unknown origin) incubated for 1 hr by colloidal coomassie staining based LC-MS/MS analysisic502.0200uM

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

ChemicalActions (top 5)PubMed papers
sodium arseniteincreases expression2
Smokedecreases expression, increases abundance2
aristolochic acid Iincreases expression1
FR900359decreases phosphorylation1
dicrotophosincreases expression1
methylmercuric chlorideincreases expression1
triphenyl phosphateaffects expression1
arseniteaffects binding, decreases reaction1
butyraldehydedecreases expression1
zinc chromatedecreases expression, increases abundance1
phenanthrenedecreases expression1
chromium hexavalent iondecreases expression, increases abundance1
perfluoro-n-nonanoic aciddecreases expression1
corosolic aciddecreases expression1
2-palmitoylglycerolincreases expression1
2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidinedecreases expression, increases response to substance1
Temozolomidedecreases expression1
Leflunomidedecreases expression1
Air Pollutantsincreases abundance, decreases expression1
Benzo(a)pyreneincreases methylation1
Ivermectindecreases expression1
Valproic Acidaffects expression1
Asbestos, Serpentinedecreases methylation1
Asbestos, Crocidolitedecreases methylation1
Asbestos, Amositedecreases methylation1
Okadaic Acidincreases expression1

ChEMBL screening assays

7 unique, capped per target: 7 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL4012576BindingBinding affinity to serine/threonine-protein phosphatase 6 regulatory ankyrin repeat subunit C in human INA-6 cells after 3 hrs by nanoLC-MS/MS methodUgi Reaction-Derived α-Acyl Aminocarboxamides Bind to Phosphatidylinositol 3-Kinase-Related Kinases, Inhibit HSF1-Dependent Heat Shock Response, and Induce Apoptosis in Multiple Myeloma Cells. — J Med Chem

Cellosaurus cell lines

3 cell lines: 2 cancer cell line, 1 transformed cell line

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

CellosaurusNameCategorySex
CVCL_B2RMAbcam HEK293T ANKRD52 KOTransformed cell lineFemale
CVCL_SC58HAP1 ANKRD52 (-) 1Cancer cell lineMale
CVCL_SC59HAP1 ANKRD52 (-) 2Cancer cell lineMale

Clinical trials (associated diseases)

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

  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): Coffin-Siris syndrome 8