gene

BACE1

Entity Detail — Knowledge Graph Node

Understanding Entity Pages

This page aggregates everything SciDEX knows about BACE1: 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.

1672Connections
4Hypotheses
7Analyses
50Outgoing
50Incoming
1Experiments
7Debates

Summary

Beta-site APP Cleaving Enzyme 1 (BACE1) is the rate-limiting enzyme in amyloid-beta production, performing the first cleavage of APP in the amyloidogenic pathway. BACE1 activity increases with age and in AD brains, driven by oxidative stress, inflammation, and impaired trafficking. BACE1 inhibitors were pursued as AD therapeutics but clinical trials (verubecestat, atabecestat, elenbecestat) failed due to cognitive worsening and synaptic toxicity, likely from inhibiting BACE1 cleavage of neuregulin-1 and other substrates critical for myelination and synaptic function. BACE1 knockout mice show seizures, hypomyelination, and behavioral deficits. Current approaches focus on partial BACE1 inhibition or substrate-selective strategies to reduce Abeta without off-target effects.

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🧬 Gene Info
Gene SymbolBACE1
Full NameBeta-Site Amyloid Precursor Protein Cleaving Enzyme 1
Chromosome11q13.2
Protein TypeProtease
Target ClassProtease
FunctionBACE1 is a transmembrane aspartyl protease that catalyzes the ectodomain shedding of numerous type I membrane proteins
Mechanism of ActionSmall molecule inhibitor of aspartyl protease activity
DruggabilityMedium (0.48)
Clinical StagePhase III
PathwaysAmyloid, Apoptosis, Lipid Metabolism, Nf-Κb, Synaptic Plasticity
UniProt IDQ15118
NCBI Gene ID23626
Ensembl IDENSG00000186318
OMIM604252
GeneCardsBACE1
Human Protein AtlasBACE1
Associated DiseasesAD, aging, Als, Alzheimer, Alzheimer's disease
Known Drugs/Compoundsaducanumab, BACE1 siRNA, DHA, Ginsenosides Rh4, lecanemab, Liquiritigenin
InteractionsABCA1, ABCA7, ACE, ACETYL-COA, ACHE, Actin
SciDEX TargetView Target Profile (8 clinical trials)
SciDEX HypothesesPalmitoylation-Targeted BACE1 Trafficking Disrupto
KG Connections1663 knowledge graph edges
DatabasesGeneCardsHPASTRING
🧬 3D Structure Comparison — BACE1 Experimental (PDB) vs Predicted (AlphaFold) — click to expand

📄 Experimental Structure

6EQM — X-ray / Cryo-EM

🔮 AI Predicted Structure

P56817 — AlphaFold

Left: Experimental structure from RCSB PDB | Right: AI-predicted structure from AlphaFold | Powered by Mol*

Wiki Pages (6)

Knowledge base pages for this entity

Canonical Page

Beta-Secretase (BACE1) Protein

protein · 3982 words

BACE1 Protein

protein · 2533 words

APP-BACE1-Fe65 Complex

mechanism · 2240 words

BACE1 (Beta-Secretase 1)

gene · 1535 words

BACE1 Amyloidogenic Cleavage Pathway

mechanism · 1517 words

BACE1 (Redirect)

redirect · 634 words

Pathway Diagram

flowchart TD
    BACE1["BACE1
beta-secretase"] APP["APP
Amyloid Precursor
Protein"] Abeta["Abeta peptides
Amyloid Beta"] AD["Alzheimer's
Disease"] ALS["ALS"] MS["Multiple
Sclerosis"] TNF["TNF-alpha
Pro-inflammatory
Cytokine"] IL6["IL-6
Pro-inflammatory
Cytokine"] NFKB["NF-kappaB
Transcription
Factor"] JAK2_STAT1["JAK2-STAT1
Signaling
Pathway"] C1Q["C1Q
Complement
Protein"] AMPK["AMPK
Energy Sensor"] Liquiritigenin["Liquiritigenin
Natural Inhibitor"] Ginsenosides["Ginsenosides Rh4
Natural Inhibitor"] BACE1_siRNA["BACE1 siRNA
Therapeutic
Inhibitor"] Neuroinflammation["Neuroinflammation"] Aging["Aging
Process"] TNF -->|"activates"| BACE1 IL6 -->|"activates"| BACE1 NFKB -->|"activates"| BACE1 JAK2_STAT1 -->|"regulates"| BACE1 C1Q -->|"regulates"| BACE1 BACE1 -->|"cleaves"| APP APP -->|"produces"| Abeta BACE1 -->|"promotes"| Abeta Abeta -->|"drives"| AD BACE1 -->|"associated_with"| AD BACE1 -->|"therapeutic_target"| ALS BACE1 -->|"therapeutic_target"| MS AMPK -->|"inhibits"| BACE1 Liquiritigenin -->|"inhibits"| BACE1 Ginsenosides -->|"inhibits"| BACE1 BACE1_siRNA -->|"inhibits"| BACE1 BACE1 -->|"biomarker_for"| Neuroinflammation BACE1 -->|"biomarker_for"| Aging style BACE1 fill:#006494 style AMPK fill:#1b5e20 style Liquiritigenin fill:#1b5e20 style Ginsenosides fill:#1b5e20 style BACE1_siRNA fill:#1b5e20 style TNF fill:#ef5350 style IL6 fill:#ef5350 style Abeta fill:#ef5350 style AD fill:#5d4400 style ALS fill:#5d4400 style MS fill:#5d4400 style Neuroinflammation fill:#5d4400 style NFKB fill:#4a1a6b style JAK2_STAT1 fill:#4a1a6b style C1Q fill:#4a1a6b

Outgoing (1089)

TargetRelationTypeStr
benchmark_ot_ad_answer_key:BACE1data_indataset_row0.00
benchmark_ot_ad_answer_key:BACE1data_indataset_row0.00
ds-b3d65f2c2ca6provides_data_fordataset1.00
ds-83b31ef18d49provides_data_fordataset1.00
ds-6784494f1741provides_data_fordataset1.00

Incoming (583)

SourceRelationTypeStr
entities-app-proteininteracts_withwiki0.00
benchmark_ot_ad_answer_key:BACE1data_indataset_row0.00
benchmark_ot_ad_answer_key:BACE1data_indataset_row0.00
genes-bace1linked_towiki_page1.00
ALZHEIMER'S DISEASEassociated_withdisease1.00

Targeting Hypotheses (4)

Hypotheses where this entity is a therapeutic target

HypothesisScoreDiseaseAnalysis
BACE1/NRG1 Axis Dysfunction Drives Excitatory/Inhibitory Imb 0.743 neurodegeneration What are the physiological functions of
SGMS1-Driven Sphingomyelin Accumulation Impairs BACE1 Lysoso 0.734 neurodegeneration What molecular mechanisms link elevated
SMPD1 (Acid Sphingomyelinase) Inhibition for Ceramide Reduct 0.732 neurodegeneration How do sphingomyelin/ceramide ratios spe
Palmitoylation-Targeted BACE1 Trafficking Disruptors 0.693 neurodegeneration Lipid raft composition changes in synapt

Mentioning Analyses (7)

Scientific analyses that reference this entity

What are the physiological functions of BACE1 beyond APP processing that could c

neurodegeneration | 2026-04-15 | 1 hypotheses Top: 0.743

What molecular mechanisms link elevated sphingomyelin synthase activity to incre

neurodegeneration | 2026-04-15 | 1 hypotheses Top: 0.734

Do β-amyloid plaques and neurofibrillary tangles cause or result from cholinergi

neurodegeneration | 2026-04-12 | 3 hypotheses Top: 0.887

CRISPR-based therapeutic approaches for neurodegenerative diseases

neurodegeneration | 2026-04-03 | 14 hypotheses Top: 0.803

Digital biomarkers and AI-driven early detection of neurodegeneration

neurodegeneration | 2026-04-01 | 7 hypotheses Top: 0.756

Experiments (1)

Experimental studies targeting or related to this entity

ExperimentTypeDiseaseScoreFeasibilityModelStatusEst. Cost
ER-Golgi Secretory Pathway Dysfunction in PD - Experiment Design clinical Parkinson's Disease 0.400 0.50 human proposed $7,500,000

Related Papers (20)

Scientific publications cited in analyses involving this entity

Title & PMIDAuthorsJournalYearCitations
Machine Learning and Novel Biomarkers for the Diagnosis of Alzheimer's Disease. [PMID:33803217] Chang CH, Lin CH, Lane HY Int J Mol Sci 2021 1
Blocking palmitoyl-transferase activity reduces BACE1 membrane localization and [PMID:23395894] Unknown Molecular Neurodegeneration 0
Pathogenic Variants and Olipudase Alfa Treatment of Patients With Acid Sphingomy [PMID:41692468] ["Hsu-Heng Lin", "Hui-An Chen", "Shyh-Je Molecular genetics & genom 2026 0
Multi-omics analysis identifies SMPD1 as a key contributor in sphingolipid pathw [PMID:41428198] ["Aron Park", "Baeki E Kang", "Eun-Ju Ji Genes & genomics 2026 0
A multi-dimensional bioinformatic dissection of the molecular mechanisms in high [PMID:41191606] Yu X MD, Lei J MSc, Du X MSc, He Y MSc, Int J Surg 2026 0
Plasma metabolites may inhibit childhood obesity by regulating ferroptosis throu [PMID:41249848] Wang JG, Pan XH, Li Y Int J Obes (Lond) 2026 0
Multi-omics analysis identifies SMPD1 as a key contributor in sphingolipid pathw [PMID:41428198] Park A, Kang BE, Jin EJ, Kim HJ, Lee CW Genes Genomics 2026 0
AXL Promotes Ischemic Myelin Repair Through Alleviating Myelin Debris Deposition [PMID:41524160] Jia J, Gan Y, Li J, Li L, Meng H et al. Adv Sci (Weinh) 2026 0
Amyloid-β fibrils accumulated in preeclamptic placentas suppress cytotrophoblast [PMID:41558820] Nishioka K, Ikezaki M, Iwahashi N, Araka Life Sci Alliance 2026 0
Pathogenic Variants and Olipudase Alfa Treatment of Patients With Acid Sphingomy [PMID:41692468] Lin HH, Chen HA, Lin SJ, Hsu RH, Lee NC Mol Genet Genomic Med 2026 0
An anti-inflammatory neuroenhancer mitigates amyloid-β pathology to improve Alzh [PMID:41696149] Fang W, Zhao J, Li L, Wang Y, Xu ZP et a Mater Today Bio 2026 0
Neuregulin1-ErbB4 Signaling Involved in Acupuncture Promoting Myelin Regeneratio [PMID:41801841] Shen J, Zhao Y, Jiang C, Huang Y, Wang L J Vis Exp 2026 0
Intranasal administration of neural stem cell-derived extracellular vesicles pre [PMID:41923110] Natale Francesca; Dellaria Alice; Nifo S Alzheimer's research & the 2026 0
Salvianolic acid a inhibits neuroinflammation and ameliorates Alzheimer's diseas [PMID:41930874] Xiao S, Han Y, Yan J, Wu L, Lin H et al. Int Immunopharmacol 2026 0
Alzheimer's disease basics: we all should know. [PMID:40639927] Das S Neurological research 2026 0
Demethyleneberberine attenuates combined cognitive and metabolic dysfunctions in [PMID:41482106] Kaur A, Singh S, Singh M, Silakari P, Ma Experimental neurology 2026 0
AXL Promotes Ischemic Myelin Repair Through Alleviating Myelin Debris Deposition [PMID:41524160] Jia J, Gan Y, Li J, Li L, Meng H, Sun M, Advanced science (Weinheim, Ba 2026 0
A multi-dimensional bioinformatic dissection of the molecular mechanisms in high [PMID:41191606] Yu X, Lei J, Du X, He Y, Peng W, Yang R, International journal of surge 2026 0
AMPK/SIRT1/PGC-1α Signaling Pathway: Molecular Mechanisms and Targeted Strategie [PMID:41268687] Chen J, Liu B, Yao X, Yang X, Sun J et a CNS Neurosci Ther 2025 0
AMPK/SIRT1/PGC-1α Signaling Pathway: Molecular Mechanisms and Targeted Strategie [PMID:41268687] Chen J, Liu B, Yao X, Yang X, Sun J, Yi CNS neuroscience & therapeutic 2025 0

Debates (7)

Multi-agent debates referencing this entity

The study demonstrates that SGMS1 elevation correlates with increased Aβ and tha

closed · Rounds: 4 · Score: 0.75 · 2026-04-16

The abstract identifies BACE1 as an attractive drug target but doesn't address i

closed · Rounds: 4 · Score: 0.76 · 2026-04-16

The abstract explicitly questions whether AD's hallmark pathologies induce choli

closed · Rounds: 4 · Score: 0.79 · 2026-04-12

Investigate how lipid raft composition (cholesterol metabolism, sphingolipids) c

closed · Rounds: 5 · Score: 0.93 · 2026-04-11

APOE4 differs from APOE3 by C112R causing domain interaction that alters lipid b

closed · Rounds: 4 · Score: 0.89 · 2026-04-06

Can speech, gait, retinal imaging, sleep, and smartphone data detect neurodegene

closed · Rounds: 4 · Score: 0.95 · 2026-04-06

Evaluate the potential of CRISPR/Cas9 and related gene editing technologies for

closed · Rounds: 4 · Score: 0.95 · 2026-04-03