PELI3

gene
On this page

Also known as MGC35521

Summary

PELI3 (pellino E3 ubiquitin protein ligase family member 3, HGNC:30010) is a protein-coding gene on chromosome 11q13.2, encoding E3 ubiquitin-protein ligase pellino homolog 3 (Q8N2H9). E3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins.

The protein encoded by this gene is a scaffold protein and an intermediate signaling protein in the innate immune response pathway. The encoded protein helps transmit the immune response signal from Toll-like receptors to IRAK1/TRAF6 complexes. Several transcript variants encoding different isoforms have been found for this gene.

Source: NCBI Gene 246330 — RefSeq curated summary.

At a glance

  • GWAS associations: 1
  • Clinical variants (ClinVar): 33 total
  • MANE Select transcript: NM_145065

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:30010
Approved symbolPELI3
Namepellino E3 ubiquitin protein ligase family member 3
Location11q13.2
Locus typegene with protein product
StatusApproved
AliasesMGC35521
Ensembl geneENSG00000174516
Ensembl biotypeprotein_coding
OMIM609827
Entrez246330

Gene structure

Transcript identifiers

Ensembl transcripts: 19 — 17 protein_coding, 1 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay

ENST00000320740, ENST00000349459, ENST00000524466, ENST00000526296, ENST00000527230, ENST00000528752, ENST00000531856, ENST00000532970, ENST00000618547, ENST00000904606, ENST00000904607, ENST00000904608, ENST00000904609, ENST00000939615, ENST00000972025, ENST00000972026, ENST00000972027, ENST00000972028, ENST00000972029

RefSeq mRNA: 4 — MANE Select: NM_145065 NM_001098510, NM_001243135, NM_001243136, NM_145065

CCDS: CCDS31615, CCDS41675, CCDS73328

Canonical transcript exons

ENST00000320740 — 8 exons

ExonStartEnd
ENSE000011889006646883366468904
ENSE000011889396647236966472470
ENSE000011889486646812866468280
ENSE000013635026646690566467027
ENSE000022018326647559866477337
ENSE000034955766647124266471371
ENSE000035879616647373766473925
ENSE000036297566647324166473435

Expression profiles

Bgee: expression breadth ubiquitous, 245 present calls, max score 96.35.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 6.0464 / max 68.3234, expressed in 1674 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter IDTPM avgSamples expressed
1153426.04641674

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
Brodmann (1909) area 23UBERON:001355496.35gold quality
endothelial cellCL:000011595.73silver quality
middle temporal gyrusUBERON:000277195.38gold quality
primary visual cortexUBERON:000243693.32gold quality
substantia nigra pars reticulataUBERON:000196693.17gold quality
ponsUBERON:000098892.92gold quality
occipital lobeUBERON:000202192.90gold quality
lateral nuclear group of thalamusUBERON:000273692.56gold quality
cerebellar vermisUBERON:000472092.15gold quality
prefrontal cortexUBERON:000045191.84gold quality
substantia nigra pars compactaUBERON:000196591.72gold quality
medial globus pallidusUBERON:000247791.28gold quality
right frontal lobeUBERON:000281091.27gold quality
frontal cortexUBERON:000187091.11gold quality
superior vestibular nucleusUBERON:000722790.98gold quality
Brodmann (1909) area 9UBERON:001354090.69gold quality
globus pallidusUBERON:000187590.63gold quality
tendon of biceps brachiiUBERON:000818890.30gold quality
neocortexUBERON:000195090.24gold quality
superior frontal gyrusUBERON:000266190.02gold quality
dorsolateral prefrontal cortexUBERON:000983489.99gold quality
ventral tegmental areaUBERON:000269189.68gold quality
medulla oblongataUBERON:000189689.67gold quality
parietal lobeUBERON:000187289.61gold quality
cerebral cortexUBERON:000095689.33gold quality
lateral globus pallidusUBERON:000247689.29gold quality
kidney epitheliumUBERON:000481988.94gold quality
anterior cingulate cortexUBERON:000983588.89gold quality
postcentral gyrusUBERON:000258188.81gold quality
right hemisphere of cerebellumUBERON:001489088.74gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3no0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

48 targeting PELI3, 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-4795-3P100.0074.624024
HSA-MIR-4776-3P100.0068.731340
HSA-MIR-3617-3P99.9867.86918
HSA-MIR-448799.9664.581252
HSA-MIR-6721-5P99.9368.922981
HSA-MIR-464899.9167.00710
HSA-MIR-449299.8768.253611
HSA-MIR-6756-5P99.8267.972466
HSA-MIR-92A-2-5P99.7567.012164
HSA-MIR-378G99.7164.901106
HSA-MIR-6766-5P99.6867.702325
HSA-MIR-6751-5P99.5664.991145
HSA-MIR-127599.4767.902749
HSA-MIR-7109-5P99.1866.131057
HSA-MIR-465199.0667.572002
HSA-MIR-3619-5P99.0068.872308
HSA-MIR-60898.9367.832013
HSA-MIR-6829-5P98.8665.121480
HSA-MIR-214-3P98.7168.122128
HSA-MIR-76198.7168.072051
HSA-MIR-548Q98.7165.35563
HSA-MIR-6887-5P98.5668.491295
HSA-MIR-6795-5P98.5268.511277
HSA-MIR-6792-3P98.4166.861359
HSA-MIR-4691-5P98.4166.771343
HSA-MIR-5088-3P98.2966.631310
HSA-MIR-446997.9365.811319
HSA-MIR-3144-5P97.6465.45646
HSA-MIR-430897.5667.131385
HSA-MIR-3127-5P97.5265.24786

Literature-anchored findings (GeneRIF, showing 11)

  • Pellino3 is a novel upstream regulator of p38 MAPK that activates CREB in a p38-dependent manner (PMID:15917247)
  • suggest that Pellino 3b acts as a negative regulator for IL-1 signaling by regulating IRAK degradation through its ubiquitin protein ligase activity [Pellino 3b] (PMID:18326498)
  • Our findings identify RIP2 as a substrate for Pellino3 and Pellino3 as an important mediator in the Nod2 pathway and regulator of intestinal inflammation. (PMID:23892723)
  • Peptide PEL3 derived from the interleukin-1 receptor-associated kinase (IRAK)1-binding motif reveals a distinct phosphothreonine peptide binding preference. (PMID:25027698)
  • Pellino-3 is involved in endotoxin tolerance and functions as a negative regulator of Toll-like receptor 2/4 signaling. (PMID:26310831)
  • The combination of low Pellino3 levels together with high and inducible Pellino1 expression may be an important determinant of the degree of inflammation triggered upon Toll-like receptor 2 engagement by Helicobacter pylori and/or its components, contributing to Helicobacter pylori-associated pathogenesis by directing the incoming signal toward an NF-kB-mediated proinflammatory response. (PMID:27302665)
  • Two protective, low-frequency, non-synonymous variants were significantly associated with a decrease in age-related macular degeneration (AMD)risk: A307V in PELI3 and N1050Y in CFH .We also identified a strong protective signal for a common variant (rs8056814) near CTRB1 associated with a decrease in AMD risk (logistic regression: OR = 0.71, P = 1.8 x 10-07). (PMID:28011711)
  • PELI3 gene expression in blood and ovarian cancer. (PMID:31520466)
  • Long Non-coding RNA MIAT Mediates Non-small Cell Lung Cancer Development Through Regulating the miR-128-3p/PELI3 Axis. (PMID:32556677)
  • miR-365a-5p suppresses gefitinib resistance in non-small-cell lung cancer through targeting PELI3. (PMID:32635799)
  • Pellino3 ligase negatively regulates influenza B dependent RIG-I signalling through downregulation of TRAF3-mediated induction of the transcription factor IRF3 and IFNbeta production. (PMID:36861386)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_reriopeli3ENSDARG00000087452
mus_musculusPeli3ENSMUSG00000024901
rattus_norvegicusPeli3ENSRNOG00000019950
drosophila_melanogasterPliFBGN0025574
caenorhabditis_elegansWBGENE00017766

Paralogs (2): PELI2 (ENSG00000139946), PELI1 (ENSG00000197329)

Protein

Protein identifiers

E3 ubiquitin-protein ligase pellino homolog 3Q8N2H9 (reviewed: Q8N2H9)

All UniProt accessions (5): Q8N2H9, E9PI91, E9PQX6, E9PR85, H0YEM6

UniProt curated annotations — full annotation on UniProt →

Function. E3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. Involved in the TLR and IL-1 signaling pathways via interaction with the complex containing IRAK kinases and TRAF6. Mediates ‘Lys-63’-linked polyubiquitination of IRAK1. Can activate AP1/JUN and ELK1. Acts as a regulator of innate immunity by mediating ‘Lys-63’-linked polyubiquitination of RIPK2 downstream of NOD1 and NOD2, thereby transforming RIPK2 into a scaffolding protein for downstream effectors, ultimately leading to activation of the NF-kappa-B and MAP kinases signaling. Catalyzes ‘Lys-63’-linked polyubiquitination of RIPK2 in parallel of XIAP.

Subunit / interactions. Interacts with TRAF6, MAP3K14 and MAP3K7.

Tissue specificity. Highly expressed in brain, heart and testis, and at lower level in kidney, liver, lung, placenta, small intestine, spleen and stomach. Isoform 1 is not expressed in lung.

Post-translational modifications. Phosphorylated by IRAK1 enhancing its E3 ligase activity.

Pathway. Protein modification; protein ubiquitination.

Similarity. Belongs to the pellino family.

Isoforms (4)

UniProt IDNamesCanonical?
Q8N2H9-11, Alpha, Ayes
Q8N2H9-22, Beta, B
Q8N2H9-33
Q8N2H9-44

RefSeq proteins (4): NP_001091980, NP_001230064, NP_001230065, NP_659502* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR006800Pellino_famFamily
IPR048334Pellino_FHADomain
IPR048335Pellino_RINGDomain

Pfam: PF04710, PF20723

UniProt features (10 total): splice variant 4, sequence conflict 2, chain 1, region of interest 1, modified residue 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q8N2H9-F181.910.59

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 (1): 11

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-9020702Interleukin-1 signaling
R-HSA-937039IRAK1 recruits IKK complex
R-HSA-975144IRAK1 recruits IKK complex upon TLR7/8 or 9 stimulation

MSigDB gene sets: 80 (showing top): REACTOME_INNATE_IMMUNE_SYSTEM, REACTOME_CYTOKINE_SIGNALING_IN_IMMUNE_SYSTEM, GOBP_RESPONSE_TO_PEPTIDE, GOBP_EXTRINSIC_APOPTOTIC_SIGNALING_PATHWAY, GOBP_NEGATIVE_REGULATION_OF_TUMOR_NECROSIS_FACTOR_MEDIATED_SIGNALING_PATHWAY, CAGGTCC_MIR492, CACCAGC_MIR138, chr11q13, GOBP_NEGATIVE_REGULATION_OF_EXTRINSIC_APOPTOTIC_SIGNALING_PATHWAY, GOBP_DEFENSE_RESPONSE_TO_OTHER_ORGANISM, GOBP_APOPTOTIC_SIGNALING_PATHWAY, GOBP_REGULATION_OF_EXTRINSIC_APOPTOTIC_SIGNALING_PATHWAY, E4F1_Q6, GOBP_TUMOR_NECROSIS_FACTOR_MEDIATED_SIGNALING_PATHWAY, GOBP_POST_TRANSLATIONAL_PROTEIN_MODIFICATION

GO Biological Process (8): regulation of Toll signaling pathway (GO:0008592), negative regulation of tumor necrosis factor-mediated signaling pathway (GO:0010804), innate immune response (GO:0045087), protein K63-linked ubiquitination (GO:0070534), negative regulation of extrinsic apoptotic signaling pathway (GO:2001237), protein polyubiquitination (GO:0000209), immune system process (GO:0002376), protein ubiquitination (GO:0016567)

GO Molecular Function (3): ubiquitin protein ligase activity (GO:0061630), protein binding (GO:0005515), transferase activity (GO:0016740)

GO Cellular Component (1): cytosol (GO:0005829)

Reactome top-level categories

Rollup of top-4 pathways:

CategoryPathways
Interleukin-1 family signaling1
MyD88:MAL(TIRAP) cascade initiated on plasma membrane1
MyD88 cascade initiated on plasma membrane1
TRAF6 mediated induction of NFkB and MAP kinases upon TLR7/8 or 9 activation1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
Toll signaling pathway1
regulation of signal transduction1
negative regulation of cytokine-mediated signaling pathway1
regulation of tumor necrosis factor-mediated signaling pathway1
tumor necrosis factor-mediated signaling pathway1
immune response1
defense response to symbiont1
protein polyubiquitination1
extrinsic apoptotic signaling pathway1
negative regulation of apoptotic signaling pathway1
regulation of extrinsic apoptotic signaling pathway1
protein ubiquitination1
biological_process1
protein modification by small protein conjugation1
ubiquitin-protein transferase activity1
ubiquitin-like protein ligase activity1
binding1
catalytic activity1
cytoplasm1
cellular anatomical structure1

Protein interactions and networks

STRING

674 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
PELI3IRAK1P51617971
PELI3TRAF6Q9Y4K3832
PELI3IRAK4Q9NWZ3749
PELI3TAB1Q15750665
PELI3TLR4O00206600
PELI3RIPK2O43353599
PELI3MAP3K7O43318595
PELI3TOLLIPQ9H0E2586
PELI3MYD88P78397586
PELI3MAPKAPK2P49137569
PELI3MAP3K14Q99558545
PELI3IL1R1P14778540
PELI3SMAD6O43541529
PELI3TAB2Q9NYJ8507
PELI3ECSITQ9BQ95490

IntAct

10 interactions, top by confidence:

ABTypeScore
PIK3R3PELI3psi-mi:“MI:0915”(physical association)0.570
PELI3PRKACGpsi-mi:“MI:0915”(physical association)0.400
PELI3TRAF6psi-mi:“MI:0915”(physical association)0.400
PELI3IRAK1psi-mi:“MI:0915”(physical association)0.400
CAMK2GPSMD12psi-mi:“MI:0914”(association)0.350
PELI3ZNF195psi-mi:“MI:0914”(association)0.350
ADORA1SORBS3psi-mi:“MI:0914”(association)0.350

BioGRID (78): IRAK1 (Affinity Capture-Western), UQCRFS1 (Affinity Capture-Western), TRAF6 (Affinity Capture-Western), KANK2 (Affinity Capture-MS), STUB1 (Affinity Capture-MS), DNAJB4 (Affinity Capture-MS), PELI3 (Two-hybrid), PIK3R3 (Affinity Capture-Luminescence), PELI3 (Synthetic Lethality), PELI3 (Two-hybrid), PELI3 (Two-hybrid), PELI3 (Affinity Capture-RNA), PRKACG (Affinity Capture-MS), PELI3 (Affinity Capture-MS), TUBA1A (Affinity Capture-MS)

ESM2 similar proteins: A2VE39, A2X0Q3, D2HRF1, D3ZVK1, E1BMF7, I0IUP3, O42130, O42131, O46374, O76808, O77237, P11388, P24785, P41515, P41516, Q01320, Q02880, Q10322, Q1MTD3, Q24498, Q298L5, Q3SZ41, Q4VSI4, Q5R981, Q5RFK6, Q5U2Z5, Q64399, Q64511, Q6A4J8, Q6ESI7, Q6GQ76, Q6NUA1, Q6NUH3, Q6YXZ7, Q6Z9U7, Q803R5, Q8AVL0, Q8BXR6, Q8IMX7, Q8K224

Diamond homologs: O77237, Q8BST6, Q8BXR6, Q8C669, Q8N2H9, Q96FA3, Q9HAT8

SIGNOR signaling

8 interactions.

AEffectBMechanism
IRAK1up-regulatesPELI3phosphorylation
PELI3up-regulatesELK1
PELI3up-regulatesJUN
PELI3up-regulatesIRAK1ubiquitination
PELI3“down-regulates quantity”TRAF6ubiquitination
PELI3“up-regulates activity”RIPK2ubiquitination
PELI3“down-regulates activity”IRF4ubiquitination

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance28
Likely benign0
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1224 predictions. Top by Δscore:

VariantEffectΔscore
11:66468121:T:TAacceptor_gain1.0000
11:66468126:AGAAT:Aacceptor_gain1.0000
11:66468127:GAATG:Gacceptor_gain1.0000
11:66471207:T:Aacceptor_gain1.0000
11:66471210:A:AGacceptor_gain1.0000
11:66471211:A:Gacceptor_gain1.0000
11:66471224:A:AGacceptor_gain1.0000
11:66471225:A:Gacceptor_gain1.0000
11:66471234:A:AGacceptor_gain1.0000
11:66471237:TACA:Tacceptor_loss1.0000
11:66471238:ACAG:Aacceptor_loss1.0000
11:66471239:C:Gacceptor_gain1.0000
11:66471239:CAGCT:Cacceptor_loss1.0000
11:66471240:A:AGacceptor_gain1.0000
11:66471241:G:GTacceptor_gain1.0000
11:66471241:GC:Gacceptor_gain1.0000
11:66471241:GCT:Gacceptor_gain1.0000
11:66471241:GCTAC:Gacceptor_gain1.0000
11:66473239:A:AGacceptor_gain1.0000
11:66473239:AG:Aacceptor_loss1.0000
11:66473239:AGATT:Aacceptor_gain1.0000
11:66473240:G:GAacceptor_gain1.0000
11:66473240:GA:Gacceptor_gain1.0000
11:66473240:GATT:Gacceptor_gain1.0000
11:66473240:GATTG:Gacceptor_gain1.0000
11:66473431:TTGGA:Tdonor_gain1.0000
11:66473432:TGGA:Tdonor_gain1.0000
11:66473433:GGA:Gdonor_gain1.0000
11:66473433:GGAG:Gdonor_gain1.0000
11:66473434:GA:Gdonor_gain1.0000

AlphaMissense

3008 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
11:66472438:T:GY142D1.000
11:66473244:G:CG154R1.000
11:66473245:G:AG154D1.000
11:66473245:G:TG154V1.000
11:66473247:C:AR155S1.000
11:66473248:G:CR155P1.000
11:66473269:A:TD162V1.000
11:66473335:T:AI184N1.000
11:66473340:C:AR186S1.000
11:66473340:C:GR186G1.000
11:66473352:C:AR190S1.000
11:66473353:G:CR190P1.000
11:66473404:G:AG207D1.000
11:66473406:T:AF208I1.000
11:66473406:T:CF208L1.000
11:66473406:T:GF208V1.000
11:66473407:T:CF208S1.000
11:66473407:T:GF208C1.000
11:66473408:C:AF208L1.000
11:66473408:C:GF208L1.000
11:66473425:T:AI214N1.000
11:66473425:T:CI214T1.000
11:66473425:T:GI214S1.000
11:66473427:T:CF215L1.000
11:66473429:C:AF215L1.000
11:66473429:C:GF215L1.000
11:66473434:G:AG217E1.000
11:66473752:T:AW223R1.000
11:66473752:T:CW223R1.000
11:66473780:G:AG232E1.000

dbSNP variants (sampled 300 via entrez): RS1000016908 (11:66466987 G>C), RS1000087031 (11:66467246 C>T), RS1000095733 (11:66467965 G>A), RS1000873232 (11:66468650 T>C), RS1001260299 (11:66468746 C>G,T), RS1001366635 (11:66474305 T>C), RS1002233999 (11:66467413 G>A,C,T), RS1002304584 (11:66467638 A>C,G), RS1002564110 (11:66474484 C>T), RS1002800879 (11:66476242 T>C), RS1003180821 (11:66475893 C>T), RS1003553778 (11:66477575 C>G), RS1003606802 (11:66470403 A>G), RS1004106600 (11:66474803 C>T), RS1004144697 (11:66469626 G>A)

Disease associations

OMIM: gene MIM:609827 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

1 associations (top):

StudyTraitp-value
GCST001241_12Bipolar disorder2.000000e-07

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Benzo(a)pyreneaffects methylation, decreases methylation, increases expression, increases methylation3
Cisplatinaffects cotreatment, increases expression2
Valproic Acidaffects expression, increases expression, increases methylation2
Cyclosporineincreases expression2
aristolochic acid Idecreases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
aflatoxin B2increases methylation1
S-(1,2-dichlorovinyl)cysteinedecreases expression, affects response to substance, increases expression, affects cotreatment1
pinostrobinincreases expression1
abrinedecreases expression1
jinfukangaffects cotreatment, increases expression1
Sunitinibincreases expression1
Air Pollutantsaffects expression, increases abundance1
Doxorubicindecreases expression1
Estradiolincreases expression1
Leadaffects expression1
Lipopolysaccharidesincreases expression, affects cotreatment, decreases expression, affects response to substance1
Methotrexateincreases expression1
Ozoneincreases abundance, affects expression1
Quercetinincreases expression1
Smokedecreases expression1
Tobacco Smoke Pollutionincreases expression1
Aflatoxin B1increases methylation1
Antirheumatic Agentsincreases expression1
Copper Sulfatedecreases expression1
Acrylamidedecreases expression1

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.