gene

PRKN

Entity Detail — Knowledge Graph Node

Understanding Entity Pages

This page aggregates everything SciDEX knows about PRKN: its mechanistic relationships (Knowledge Graph edges), hypotheses targeting it, analyses mentioning it, and supporting scientific papers. The interactive graph below shows its immediate neighbors. All content is AI-synthesized from peer-reviewed literature.

1687Connections

1Hypotheses

2Analyses

50Outgoing

50Incoming

0Experiments

2Debates

Summary

PRKN is a gene implicated in neurodegeneration research. Key relationships include: interacts with, associated with, activates. Associated with AD, ALI, ALS. Connected to 740 entities in the SciDEX knowledge graph.

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🧬 Gene Info

Gene Symbol	PRKN
Full Name	Parkin RBR E3 Ubiquitin Protein Ligase
Chromosome	6q26
Protein Type	Ligase
Function	is a gene located on chromosome 6q26 that encodes an E3 ubiquitin ligase essential for mitochondrial quality control and mitophagy[@kitada1998].
Primary Expression	Substantia nigra, Striatum, Cortex, Heart, Skeletal muscle
Pathways	Autophagy, E3 Ligase Activity, Glycolysis, Mitophagy, Oxidative Stress
UniProt ID	O60260
NCBI Gene ID	5071
Ensembl ID	ENSG00000185348
OMIM	602544
GeneCards	PRKN
Human Protein Atlas	PRKN
Unique Palmitoylation Site	Cysteine 431 for membrane association
RING0 domain	Inhibitory regulatory domain
Associated Diseases	AD, Aging, ALI, Als, Alzheimer
Known Drugs/Compounds	dimethyl fumarate, FB231, Fumarate, nicotinamide, rapamycin
Interactions	ABCD3, ABP, ACTB, Actin, AIF1, AIFM1
KG Connections	1687 knowledge graph edges
Databases	GeneCards HPA STRING

🔮 Predicted Structure: PRKN — AlphaFold O60260 Click to expand

AI-predicted structure from AlphaFold | Powered by Mol*

Wiki Pages (3)

Knowledge base pages for this entity

Canonical Page

Pathway Diagram

graph TD
    PRKN["PRKN"] -->|"causes"| PD["PD"]
    PRKN["PRKN"] -->|"regulates"| NEMO["NEMO"]
    PRKN["PRKN"] -->|"encodes"| Parkin["Parkin"]
    PRKN["PRKN"] -->|"causes"| Parkinson_s_disease["Parkinson's disease"]
    PRKN["PRKN"] -->|"interacts"| Dementia["Dementia"]
    PRKN["PRKN"] -->|"interacts"| Cardiovascular["Cardiovascular"]
    CAT["CAT"] -->|"interacts"| PRKN["PRKN"]
    OPTN["OPTN"] -->|"interacts"| PRKN["PRKN"]
    DNM1L["DNM1L"] -->|"interacts"| PRKN["PRKN"]
    CANX["CANX"] -->|"interacts"| PRKN["PRKN"]
    style PRKN fill:#4a1a6b,stroke:#4fc3f7,stroke-width:2px,color:#e0e0e0

Outgoing (888)

Target	Relation	Type	Str
autophagy	activates	pathway	1.00
Mitophagy	regulates	pathway	1.00
Autophagy	activates	pathway	1.00
MITOCHONDRIA	activates	gene	1.00
Parkinson's Disease	causes	disease	0.95
Exogenous Mitochondria	degrades	process	0.95
Parkinson's Disease	risk_factor_for	disease	0.95
Cancer	activates	disease	0.95
Parkinson's Disease	contributes_to	disease	0.95
Parkinson Disease	risk_factor_for	disease	0.95
PINK1-Parkin-Mediated Mitophagy	involved_in	pathway	0.95
Parkinson'S Disease	associated_with	disease	0.95
mitochondrial quality control	regulates	pathway	0.95
Mitochondrial Dysfunction	regulates	process	0.95
Parkinson's Disease	associated_with	disease	0.95
NEMO	mediates	protein	0.95
Als	associated_with	disease	0.95
Mitochondrial Quality Control	regulates	process	0.95
mitophagy	promotes	process	0.92
Early Onset Parkinson's Disease	risk_factor_for	disease	0.90
Ubiquitination	mediates	process	0.90
Damaged Mitochondria	targets	phenotype	0.90
MITOCHONDRIA	mediates	cell_type	0.90
Mitochondrial Biogenesis	involved_in	process	0.90
ubiquitin-proteasome	participates_in	pathway	0.90
autophagy pathway	participates_in	pathway	0.90
E3 Ligase Activity	involved_in	mechanism	0.90
Mitochondrial Localization	involved_in	process	0.90
MITOPHAGY	mediates	process	0.90
mitophagy	activates	pathway	0.90
Mitophagy	involved_in	process	0.90
Mitophagy	mediates	process	0.90
outer mitochondrial membrane proteins	modifies	protein	0.90
mitochondrial homeostasis	associated_with	process	0.90
ALS	risk_factor_for	disease	0.90
selective autophagy	activates	pathway	0.90
depolarization-induced mitophagy	promotes	process	0.90
Parkinson'S Disease	risk_factor_for	disease	0.90
NEMO	associated_with	protein	0.90
PARKIN	associated_with	gene	0.90
Mitophagy	activates	pathway	0.90
Autophagy	involved_in	process	0.88
ER-Mitochondria Contact Sites	modulates	mechanism	0.88
Neuroprotection	mediates	process	0.85
Parkinson	associated_with	disease	0.85
Depolarization-Induced Mitophagy	involved_in	process	0.85
neuroprotection	protects_against	process	0.85
Mitochondrial Quality Control	involved_in	pathway	0.85
Energy Balance	regulates	process	0.85
UBIQUITIN	upstream_of	protein	0.85

Incoming (799)

Source	Relation	Type	Str
PINK1	activates	gene	1.00
MITOPHAGY	regulates	gene	1.00
PINK1	associated_with	gene	1.00
MANF	binds_to	protein	0.95
Fumarate	modulates	compound	0.95
Fumarate	inhibits	compound	0.95
SRT2104	upregulates	drug	0.92
PHB2	mediates	protein	0.90
AMPK	activates	protein	0.90
PINK1	part_of	gene	0.90
MANF	interacts_with	protein	0.90
Succination	modulates	process	0.90
MANF	activates	protein	0.90
AMPK	phosphorylates	protein	0.90
Succination	targets	process	0.90
MITOPHAGY	activates	gene	0.90
PARK2	associated_with	gene	0.90
CANCER	activates	gene	0.90
AUTOPHAGY	activates	gene	0.90
TMX2	mediates	protein	0.85
SNCA	upregulates	gene	0.85
BOK	binds	protein	0.85
FB231	activates	compound	0.85
protein oxidation	inhibits	process	0.85
APOE	inhibits	gene	0.85
CKLF	upregulates	protein	0.85
PINK1	coexpressed_with	gene	0.85
SIRT1	upregulates	protein	0.85
PRKAA	activates	gene	0.80
FBXO7	interacts_with	gene	0.80
DNAJC6	interacts_with	gene	0.80
ATP13A2	interacts_with	gene	0.80
Lyc	upregulates	compound	0.80
CKLF1	contributes_to	gene	0.80
CKLF	contributes_to	protein	0.80
Srt2104	upregulates	drug	0.80
Autophagy Activation	downregulates	process	0.80
PINK1	participates_in	gene	0.80
MAP1LC3B	regulates	gene	0.80
serotonin	modulates	compound	0.80
LRRK2	associated_with	gene	0.80
RAB7_protein	interacts_with	protein	0.80
GENES	associated_with	gene	0.80
PARKINSON	associated_with	gene	0.80
SQSTM1	activates	gene	0.80
PINK1	regulates	gene	0.80
DNM1L	regulates	gene	0.70
MFF	associated_with	gene	0.70
PARKINSON	contributes_to	gene	0.70
RB1	associated_with	gene	0.70

Targeting Hypotheses (1)

Hypotheses where this entity is a therapeutic target

Hypothesis	Score	Disease	Analysis
Mitophagy collapse via PINK1-PRKN is the primary autophagy l	0.614	neurodegeneration	What specific autophagy pathways are def

Mentioning Analyses (2)

Scientific analyses that reference this entity

Why does PRKN-mediated mitophagy, typically protective, cause harmful mitochondr

neurodegeneration | 2026-04-15 | 2 hypotheses Top: 0.455

Autophagy-lysosome pathway convergence across neurodegenerative diseases

neurodegeneration | 2026-04-01 | 7 hypotheses Top: 0.882

Experiments (0)

Experimental studies targeting or related to this entity

Experiment	Type	Disease	Score	Feasibility	Model	Status	Est. Cost
No experiments found

Related Papers (0)

Scientific publications cited in analyses involving this entity

Title & PMID	Authors	Journal	Year	Citations
No papers found

Debates (2)

Multi-agent debates referencing this entity

The abstract reveals an unexpected contradiction where PRKN activation, normally

closed · Rounds: 4 · Score: 0.91 · 2026-04-15

Multiple NDDs converge on autophagy-lysosome dysfunction. Are there universal th

closed · Rounds: 4 · Score: 0.90 · 2026-04-06