HRK

gene
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Also known as DP5

Summary

HRK (harakiri, BCL2 interacting protein, HGNC:5185) is a protein-coding gene on chromosome 12q24.22, encoding Activator of apoptosis harakiri (O00198). Promotes apoptosis.

This gene encodes a member of the BCL-2 protein family. Members of this family are involved in activating or inhibiting apoptosis. The encoded protein localizes to intracellular membranes. This protein promotes apoptosis by interacting with the apoptotic inhibitors BCL-2 and BCL-X(L) via its BH3 domain. Alternate splicing results in multiple transcript variants.

Source: NCBI Gene 8739 — RefSeq curated summary.

At a glance

  • GWAS associations: 18
  • Clinical variants (ClinVar): 22 total
  • MANE Select transcript: NM_003806

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:5185
Approved symbolHRK
Nameharakiri, BCL2 interacting protein
Location12q24.22
Locus typegene with protein product
StatusApproved
AliasesDP5
Ensembl geneENSG00000135116
Ensembl biotypeprotein_coding
OMIM603447
Entrez8739

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 2 protein_coding, 2 protein_coding_CDS_not_defined

ENST00000257572, ENST00000550505, ENST00000552092, ENST00000586941

RefSeq mRNA: 1 — MANE Select: NM_003806 NM_003806

CCDS: CCDS9181

Canonical transcript exons

ENST00000257572 — 2 exons

ExonStartEnd
ENSE00000918061116880976116881441
ENSE00001092234116856144116861466

Expression profiles

Bgee: expression breadth ubiquitous, 161 present calls, max score 88.77.

FANTOM5 (CAGE): breadth broad, TPM avg 1.3061 / max 83.3489, expressed in 469 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter IDTPM avgSamples expressed
1334860.7133292
2069170.3520202
1334830.130242
1334850.080731
1334840.029911

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
buccal mucosa cellCL:000233688.77gold quality
endothelial cellCL:000011586.76gold quality
pancreatic ductal cellCL:000207981.63silver quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099181.47gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047380.24gold quality
Brodmann (1909) area 23UBERON:001355478.01gold quality
Ammon’s hornUBERON:000195474.56gold quality
prefrontal cortexUBERON:000045174.32gold quality
cingulate cortexUBERON:000302773.04gold quality
anterior cingulate cortexUBERON:000983572.94gold quality
middle temporal gyrusUBERON:000277172.70silver quality
entorhinal cortexUBERON:000272872.48gold quality
frontal cortexUBERON:000187071.41gold quality
cerebral cortexUBERON:000095671.39gold quality
spermCL:000001971.26gold quality
primary visual cortexUBERON:000243671.17gold quality
neocortexUBERON:000195071.04gold quality
dorsolateral prefrontal cortexUBERON:000983470.84gold quality
mucosa of transverse colonUBERON:000499170.60gold quality
superior frontal gyrusUBERON:000266170.17gold quality
choroid plexus epitheliumUBERON:000391170.15silver quality
male germ cellCL:000001569.59gold quality
rectumUBERON:000105269.59gold quality
Brodmann (1909) area 9UBERON:001354069.53gold quality
postcentral gyrusUBERON:000258169.04gold quality
right frontal lobeUBERON:000281068.59gold quality
parietal lobeUBERON:000187268.26gold quality
temporal lobeUBERON:000187168.12gold quality
occipital lobeUBERON:000202168.12gold quality
Brodmann (1909) area 46UBERON:000648367.83silver quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes4.51

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): AHR, ATF2, ATF4, E2F1, JUN, KCNIP3, PAX1, RPS3, TFAP2A, TFDP2

miRNA regulators (miRDB)

54 targeting HRK, 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-190A-3P100.0080.355520
HSA-MIR-5011-5P100.0083.465820
HSA-MIR-29A-3P100.0073.111835
HSA-MIR-29B-3P100.0073.181833
HSA-MIR-29C-3P100.0073.151833
HSA-MIR-6833-3P100.0070.633197
HSA-MIR-6870-5P99.9968.552115
HSA-MIR-318599.9968.121959
HSA-MIR-118499.9968.191458
HSA-MIR-548P99.9872.253784
HSA-MIR-4723-5P99.9768.702034
HSA-MIR-569899.9768.492029
HSA-MIR-7111-5P99.9768.482062
HSA-MIR-1468-3P99.9672.743797
HSA-MIR-545-3P99.9570.742783
HSA-MIR-391099.9571.132227
HSA-MIR-450B-5P99.9271.483175
HSA-MIR-6809-3P99.9171.453814
HSA-MIR-498-3P99.9171.271114
HSA-MIR-568299.8972.561005
HSA-MIR-444799.8567.812900
HSA-MIR-76599.8468.242442
HSA-MIR-544A99.8468.661965
HSA-MIR-3121-3P99.8271.963630
HSA-MIR-449599.8272.083080
HSA-MIR-7110-5P99.8067.841712
HSA-MIR-11181-3P99.7566.382205
HSA-MIR-119799.7067.751027
HSA-MIR-447299.5666.081478
HSA-MIR-3120-3P99.5470.282669

Literature-anchored findings (GeneRIF, showing 21)

  • Hrk is involved in the induction of apoptosis in RGCs after optic nerve transection. (PMID:11796190)
  • apoptosis inducers as diverse as oncoprotein inhibitors and cell death receptor activators trigger Hrk expression via blockade of DREAM in leukemia cells (PMID:12217801)
  • Data report that human oocytes and fragmenting preimplantation embryos possess transcripts encoding Harakiri and caspase-3. (PMID:12606589)
  • HRK is a target of epigenetic inactivation in colorectal and gastric cancer (PMID:14695142)
  • The interaction between HRK and cellular protein p32 was studied. HRK-induced apoptosis was suppresssed by the expression of p32 mutants lacking the N-terminal sequences 74-282 and the C-terminal sequences 1-221. (PMID:15031724)
  • HRK appears to be inactivated principally by promoter hypermethylation in prostate cancers and decreased expression may play an important role in tumor progression by modulating apoptotic cell death (PMID:18008329)
  • in response to PAHs, Ahr-mediated activation of the harakiri, BCL2 interacting protein (contains only BH3 domain), was necessary for execution of cell death. (PMID:18037991)
  • Aberrant 5’-CpG methylation status and loss of heterozygosity on 12q13.1 are associated with HRK expression in human malignancies, including prostate cancers, astrocytic tumors and primary central nervous system lymphomas. Review. (PMID:19641496)
  • analysis of a novel interaction between Bcl-2 members Diva and Harakiri (PMID:21209886)
  • These results are used to propose a tentative structural model of how Harakiri works. (PMID:21731739)
  • Data suggest that DP5 and PUMA/BBC3 (p53 up-regulated modulator of apoptosis/bcl-2-binding component 3) contribute to palmitate-induced apoptosis of pancreatic beta-cells via lipotoxic endoplasmic reticulum stress. (PMID:22773666)
  • SUZ12 promotes the proliferation of human EOC cells by inhibiting apoptosis and HRK is a novel SUZ12 target gene whose upregulation contributes to apoptosis induced by SUZ12 knockdown. (PMID:22964433)
  • The BH3-only protein harakiri (HRK) is transactivated by ATF4 in severe hypoxia through direct binding of ATF4 to the promoter region. (PMID:23090478)
  • Diva binds peptides derived from the BH3 domain of several other proapoptotic Bcl-2 proteins, including mouse Harakiri, Bid, Bak and Bmf. (PMID:23192964)
  • our findings suggest that induction of the BH3-only protein Hrk is a critical step in 2-ME activation of the JNK-induced apoptotic pathway, targeting mitochondria by liberating proapoptotic protein Bak. (PMID:23580416)
  • miR-23a-3p, miR-23b-3p, and miR-149-5p, were downregulated by cytokines and selected for further studies. These miRNAs were found to regulate the expression of the proapoptotic Bcl-2 proteins DP5 and PUMA and consequent human beta-cell apoptosis. (PMID:27737950)
  • The apoptosis phenotype was partly dependent on HRK upregulation, as HRK knockdown significantly abrogated the sensitization. KDM2B-silenced tumors exhibited slower growth in vivo. Taken together, our findings suggest a novel mechanism, where the key apoptosis components are under epigenetic control of KDM2B in glioblastoma multiforme cells. (PMID:28661478)
  • In individuals with susceptible genetic backgrounds, Coxsackie B viral infection alters the epigenome to activate the pathological pathways leading to polymyositis-dermatomyositis via mitochondrial dysfunction and HRK up-regulation. (PMID:31135059)
  • Characterization of an alternative BAK-binding site for BH3 peptides. (PMID:32620849)
  • YAP-Mediated Repression of HRK Regulates Tumor Growth, Therapy Response, and Survival Under Tumor Environmental Stress in Neuroblastoma. (PMID:32900773)
  • Upregulated lncHRK2:1 prompts nucleus pulposus cell senescence in intervertebral disc degeneration. (PMID:33174041)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusHrkENSMUSG00000046607
rattus_norvegicusHrkENSRNOG00000079458

Protein

Protein identifiers

Activator of apoptosis harakiriO00198 (reviewed: O00198)

Alternative names: BH3-interacting domain-containing protein 3, Neuronal death protein DP5

All UniProt accessions (2): O00198, K7EJY7

UniProt curated annotations — full annotation on UniProt →

Function. Promotes apoptosis.

Subunit / interactions. Interacts with BCL2 and BCL2L1. Interacts with C1QBP.

Subcellular location. Membrane. Mitochondrion.

Domain organisation. The BH3 motif is required for the induction of cell death.

RefSeq proteins (1): NP_003797* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR017249Apoptosis_activator_harakiriFamily
IPR020728Bcl2_BH3_motif_CSConserved_site

Pfam: PF15196

UniProt features (5 total): helix 2, chain 1, transmembrane region 1, short sequence motif 1

Structure

Experimental structures (PDB)

7 structures.

PDBMethodResolution (Å)
9UGPX-RAY DIFFRACTION1.39
7P0UX-RAY DIFFRACTION1.99
6XY4X-RAY DIFFRACTION2.05
9LI8X-RAY DIFFRACTION2.32
9LGUX-RAY DIFFRACTION2.97
2L58SOLUTION NMR
2L5BSOLUTION NMR

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O00198-F172.650.14

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 167 (showing top): RNGTGGGC_UNKNOWN, BENPORATH_ES_WITH_H3K27ME3, SCHLESINGER_METHYLATED_DE_NOVO_IN_CANCER, TAL1ALPHAE47_01, LHX3_01, GOBP_POSITIVE_REGULATION_OF_ORGANELLE_ORGANIZATION, GOBP_REGULATION_OF_CELLULAR_COMPONENT_BIOGENESIS, GOBP_POSITIVE_REGULATION_OF_RELEASE_OF_CYTOCHROME_C_FROM_MITOCHONDRIA, NKX61_01, GOBP_REGULATION_OF_MITOCHONDRION_ORGANIZATION, GOBP_POSITIVE_REGULATION_OF_CELLULAR_COMPONENT_BIOGENESIS, GOBP_APOPTOTIC_SIGNALING_PATHWAY, TGCTGAY_UNKNOWN, BILD_E2F3_ONCOGENIC_SIGNATURE, GOBP_REGULATION_OF_RELEASE_OF_CYTOCHROME_C_FROM_MITOCHONDRIA

GO Biological Process (7): apoptotic process (GO:0006915), positive regulation of protein-containing complex assembly (GO:0031334), positive regulation of apoptotic process (GO:0043065), positive regulation of neuron apoptotic process (GO:0043525), cellular response to potassium ion starvation (GO:0051365), positive regulation of release of cytochrome c from mitochondria (GO:0090200), regulation of apoptotic process (GO:0042981)

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

GO Cellular Component (2): mitochondrion (GO:0005739), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
apoptotic process2
programmed cell death1
apoptotic signaling pathway1
execution phase of apoptosis1
regulation of protein-containing complex assembly1
positive regulation of cellular component biogenesis1
positive regulation of cellular component organization1
protein-containing complex assembly1
regulation of apoptotic process1
positive regulation of programmed cell death1
positive regulation of apoptotic process1
regulation of neuron apoptotic process1
neuron apoptotic process1
cellular response to starvation1
release of cytochrome c from mitochondria1
positive regulation of organelle organization1
regulation of release of cytochrome c from mitochondria1
regulation of programmed cell death1
binding1
cytoplasm1
intracellular membrane-bounded organelle1
cellular anatomical structure1

Protein interactions and networks

STRING

518 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
HRKBCL2L1Q07817997
HRKBCL2P10415996
HRKMCL1Q07820982
HRKBIKQ13323968
HRKBCL2L2-PABPN1Q92843968
HRKBCL2A1Q16548919
HRKTFDP3Q5H9I0916
HRKPMAIP1Q13794883
HRKBMFQ96LC9832
HRKBCL2L11O43521805
HRKAPCP25054786
HRKDPP8Q6V1X1755
HRKBCL2L10Q9HD36718
HRKBOKQ9UMX3709
HRKRTL10Q7L3V2696

IntAct

17 interactions, top by confidence:

ABTypeScore
HRKBCL2L1psi-mi:“MI:0915”(physical association)0.700
BCL2L1HRKpsi-mi:“MI:0915”(physical association)0.700
HRKBCL2L1psi-mi:“MI:0407”(direct interaction)0.700
HRKC1QBPpsi-mi:“MI:0915”(physical association)0.600
C1QBPHRKpsi-mi:“MI:0915”(physical association)0.600
C1QBPHRKpsi-mi:“MI:0403”(colocalization)0.600
BCL2L1HRKpsi-mi:“MI:0407”(direct interaction)0.440
BCL2L2HRKpsi-mi:“MI:0407”(direct interaction)0.440
HRKBcl2a1psi-mi:“MI:0407”(direct interaction)0.440
HRKC1QBPpsi-mi:“MI:0915”(physical association)0.400
Bcl2l1HRKpsi-mi:“MI:0915”(physical association)0.400
MCL1HRKpsi-mi:“MI:0915”(physical association)0.370

BioGRID (24): HRK (Protein-peptide), HRK (Protein-peptide), HRK (Protein-peptide), HRK (Protein-peptide), HRK (Protein-peptide), HRK (Protein-peptide), HRK (FRET), BCL2 (Two-hybrid), BCL2L1 (Two-hybrid), BCL2 (Affinity Capture-Western), BCL2L1 (Affinity Capture-Western), BCL2L1 (Affinity Capture-Western), HRK (Affinity Capture-Western), HRK (Negative Genetic), HRK (Negative Genetic)

ESM2 similar proteins: A8E4L3, B9VXK4, E9Q5Z5, F5H9F9, F5HC16, O00198, O40955, P03189, P08314, P0C171, P10212, P10230, P13889, P16731, P16763, P16812, P17587, P27416, P27593, P27599, P36342, P36343, P36385, P89439, P89440, P89451, P89457, P89466, Q00660, Q1HVH8, Q2VPJ9, Q3KSU7, Q66665, Q66671, Q6P1X6, Q6SWA4, Q6UDG2, Q6VUC0, Q6VUP9, Q6X2U2

Diamond homologs: O00198, P62816, P62817

SIGNOR signaling

2 interactions.

AEffectBMechanism
HRKdown-regulatesBCL2binding
HRKdown-regulatesBCL2L1binding

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance20
Likely benign1
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

764 predictions. Top by Δscore:

VariantEffectΔscore
12:116861370:T:TAdonor_gain1.0000
12:116880971:CGTA:Cdonor_loss0.9900
12:116880972:GTAC:Gdonor_loss0.9900
12:116880973:TACC:Tdonor_loss0.9900
12:116880974:A:Tdonor_loss0.9900
12:116880975:C:Adonor_loss0.9900
12:116880901:T:Adonor_gain0.9800
12:116861313:C:Adonor_gain0.9700
12:116861364:T:Adonor_gain0.9700
12:116861312:T:TAdonor_gain0.9600
12:116863175:A:ACdonor_gain0.9500
12:116874985:T:TAacceptor_gain0.9500
12:116861462:CCAAC:Cacceptor_gain0.9400
12:116861463:CAACC:Cacceptor_gain0.9400
12:116879072:CACA:Cdonor_gain0.9400
12:116861465:ACCTG:Aacceptor_loss0.9300
12:116861466:CCT:Cacceptor_loss0.9300
12:116861468:T:Gacceptor_loss0.9300
12:116875363:A:ACdonor_gain0.9300
12:116879072:CA:Cdonor_gain0.9300
12:116880893:TGCC:Tdonor_gain0.9300
12:116880970:GCGT:Gdonor_loss0.9200
12:116879071:A:ACdonor_gain0.9100
12:116879072:C:CCdonor_gain0.9100
12:116879451:T:TAdonor_gain0.9100
12:116860637:C:CTdonor_gain0.9000
12:116861463:CAAC:Cacceptor_gain0.9000
12:116879380:T:TAdonor_gain0.9000
12:116880894:G:Adonor_gain0.9000
12:116880974:A:ACdonor_gain0.9000

AlphaMissense

557 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
12:116881198:A:TL37H0.981
12:116881187:C:GG41R0.978
12:116881187:C:AG41C0.976
12:116881084:G:TA75D0.975
12:116881186:C:AG41V0.972
12:116881186:C:TG41D0.964
12:116881198:A:GL37P0.964
12:116881177:A:GL44P0.951
12:116881072:G:TA79E0.945
12:116881298:A:GC4R0.933
12:116881087:G:TA74E0.930
12:116881296:G:CC4W0.927
12:116881194:C:AK38N0.923
12:116881194:C:GK38N0.923
12:116881063:G:TA82E0.922
12:116881081:G:TA76E0.918
12:116881260:G:CC16W0.916
12:116881097:A:GW71R0.914
12:116881097:A:TW71R0.914
12:116881302:G:CC2W0.914
12:116881254:G:CC18W0.912
12:116881069:G:TA80E0.908
12:116881183:T:AD42V0.906
12:116881184:C:GD42H0.905
12:116881075:A:TV78E0.902
12:116881189:A:GL40P0.898
12:116881256:A:GC18R0.896
12:116881091:A:GC73R0.891
12:116881168:C:GR47P0.889
12:116881054:A:GL85P0.888

dbSNP variants (sampled 300 via entrez): RS1000008855 (12:116860850 G>A), RS1000081853 (12:116860512 C>G,T), RS1000167863 (12:116881270 G>A,C,T), RS1000233369 (12:116866618 T>C), RS1000365510 (12:116873570 A>C,T), RS1000439156 (12:116873171 T>A,C), RS1000475544 (12:116880072 C>A), RS1000557915 (12:116870179 A>C), RS1000677056 (12:116866396 A>G), RS1000686906 (12:116881450 T>C), RS1000703921 (12:116871758 G>A), RS1000888148 (12:116878589 C>A), RS1000979364 (12:116865413 G>A), RS1001212563 (12:116878845 A>C), RS1001655659 (12:116859454 A>G)

Disease associations

OMIM: gene MIM:603447 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

18 associations (top):

StudyTraitp-value
GCST001280_5Alzheimer’s disease (age of onset)3.000000e-06
GCST001481_2Brain structure7.000000e-16
GCST001485_4Hippocampal volume3.000000e-11
GCST002756_12Subcortical brain region volumes7.000000e-10
GCST002756_6Subcortical brain region volumes3.000000e-15
GCST003961_1Hippocampal volume2.000000e-25
GCST006870_7Hippocampal tail volume2.000000e-19
GCST006871_6Total hippocampal volume2.000000e-35
GCST006872_1Presubiculum volume (corrected for total hippocampal volume)2.000000e-15
GCST006885_1Presubiculum volume1.000000e-11
GCST006886_1Subiculum volume1.000000e-17
GCST006887_1Hippocampal subfield CA1 volume7.000000e-28
GCST006888_3Hippocampal subfield CA3 volume2.000000e-15
GCST006889_2Hippocampal subfield CA4 volume2.000000e-24
GCST006890_1Dentate gyrus granule cell layer volume9.000000e-26
GCST006891_5Dentate gyrus molecular layer volume2.000000e-25
GCST006894_1HATA volume4.000000e-13
GCST010703_5Brain morphology (MOSTest)4.000000e-32

EFO canonical traits (7, from GWAS)

EFO IDTrait name
EFO:0004847age at onset
EFO:0005035hippocampal volume
EFO:0009394hippocampal CA1 volume
EFO:0009395hippocampal CA3 volume
EFO:0009396hippocampal CA4 volume
EFO:0009401hippocampal amigdala transition area volume
EFO:0004346neuroimaging measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
bisphenol Adecreases methylation, decreases expression, increases expression, affects cotreatment3
mercuric bromideincreases expression, affects cotreatment2
sphingosine 1-phosphateincreases expression, decreases reaction2
entinostataffects cotreatment, increases expression2
2,2’,4,4’-tetrabromodiphenyl etherincreases expression2
Arsenic Trioxideincreases expression2
Leflunomideincreases expression2
Panobinostataffects cotreatment, increases expression2
Cisplatinaffects expression, affects cotreatment, decreases expression2
Copperaffects binding, increases expression, decreases expression2
Rotenoneaffects response to substance, increases expression2
Smokeincreases expression, decreases expression2
Valproic Acidincreases expression, decreases expression2
Asbestos, Crocidolitedecreases expression, affects expression2
p-Chloromercuribenzoic Acidaffects cotreatment, increases expression2
afuresertibincreases expression1
methylmercuric chlorideincreases expression1
triphenyl phosphateaffects expression1
propionaldehydeincreases expression1
decabromobiphenyl etheraffects expression1
trichostatin Aincreases expression1
o,p’-DDTincreases expression1
3,3’-diindolylmethaneincreases expression1
tris(1,3-dichloro-2-propyl)phosphateincreases expression1
butyraldehydeincreases expression1
pentanalincreases expression1
cordycepinaffects expression1
N-acetylsphingosineincreases expression, decreases reaction1
usnic acidincreases expression1
CGP 52608increases reaction, affects binding1

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.