GSAP

gene
On this page

Also known as LOC54103

Summary

GSAP (gamma-secretase activating protein, HGNC:28042) is a protein-coding gene on chromosome 7q11.23, encoding Gamma-secretase-activating protein (A4D1B5). Regulator of gamma-secretase activity, which specifically activates the production of amyloid-beta protein (amyloid-beta protein 40 and amyloid-beta protein 42), without affecting the cleavage of other gamma-secretase targets such has Notch.

Accumulation of neurotoxic amyloid-beta is a major hallmark of Alzheimer disease (AD; MIM 104300). Formation of amyloid-beta is catalyzed by gamma-secretase (see PSEN1; MIM 104311), a protease with numerous substrates. PION, or GSAP, selectively increases amyloid-beta production through a mechanism involving its interaction with both gamma-secretase and its substrate, the amyloid-beta precursor protein (APP; MIM 104760) C-terminal fragment (APP-CTF) (He et al., 2010 [PubMed 20811458]).

Source: NCBI Gene 54103 — RefSeq curated summary.

At a glance

  • GWAS associations: 7
  • Clinical variants (ClinVar): 149 total
  • Druggable target: yes — 1 molecules with ChEMBL bioactivity
  • MANE Select transcript: NM_017439

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:28042
Approved symbolGSAP
Namegamma-secretase activating protein
Location7q11.23
Locus typegene with protein product
StatusApproved
AliasesLOC54103
Ensembl geneENSG00000186088
Ensembl biotypeprotein_coding
OMIM613552
Entrez54103

Gene structure

Transcript identifiers

Ensembl transcripts: 15 — 6 retained_intron, 5 protein_coding, 4 protein_coding_CDS_not_defined

ENST00000257626, ENST00000334003, ENST00000415112, ENST00000426477, ENST00000430584, ENST00000434084, ENST00000440473, ENST00000441833, ENST00000449779, ENST00000474686, ENST00000482866, ENST00000489920, ENST00000491796, ENST00000880888, ENST00000943097

RefSeq mRNA: 7 — MANE Select: NM_017439 NM_001350896, NM_001350897, NM_001350898, NM_001350899, NM_001350900, NM_001350901, NM_017439

CCDS: CCDS34672

Canonical transcript exons

ENST00000257626 — 31 exons

ExonStartEnd
ENSE000015197517741621377416349
ENSE000021463797733023977330367
ENSE000034630137735294477353026
ENSE000034647587735357277353641
ENSE000034669337737505877375101
ENSE000034736467736082477360901
ENSE000034840037740455977404615
ENSE000034858227738736077387448
ENSE000034898127732933377329391
ENSE000034955317739698277397035
ENSE000034988487735555577355647
ENSE000034990037732072577320819
ENSE000035087587736258377362660
ENSE000035259637734935177349404
ENSE000035356687735521377355430
ENSE000035393547737407077374155
ENSE000035403597738130577381354
ENSE000035509347732621277326273
ENSE000035511317731437077314489
ENSE000035733527737684877376907
ENSE000035894437732860677328637
ENSE000035903827731184177311940
ENSE000036005727739734677397415
ENSE000036047747738257477382643
ENSE000036091747731075177311449
ENSE000036295417731348877313549
ENSE000036295957737728677377390
ENSE000036458457732133377321403
ENSE000036641007740602977406105
ENSE000036708857732364777323742
ENSE000036809887731210177312202

Expression profiles

Bgee: expression breadth ubiquitous, 279 present calls, max score 96.09.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 8.3214 / max 237.7892, expressed in 1010 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
844628.24721007
844540.057920
844530.01628

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
granulocyteCL:000009496.09gold quality
right uterine tubeUBERON:000130295.99gold quality
monocyteCL:000057695.45gold quality
mononuclear cellCL:000084295.45gold quality
leukocyteCL:000073895.08gold quality
spleenUBERON:000210694.20gold quality
right lungUBERON:000216793.16gold quality
epithelium of nasopharynxUBERON:000195192.80gold quality
visceral pleuraUBERON:000240192.71gold quality
right lobe of thyroid glandUBERON:000111991.89gold quality
secondary oocyteCL:000065591.87gold quality
upper lobe of left lungUBERON:000895291.74gold quality
left lobe of thyroid glandUBERON:000112091.71gold quality
upper lobe of lungUBERON:000894891.54gold quality
thyroid glandUBERON:000204691.28gold quality
lungUBERON:000204891.05gold quality
upper leg skinUBERON:000426290.95gold quality
pleuraUBERON:000097790.72gold quality
pituitary glandUBERON:000000790.22gold quality
vermiform appendixUBERON:000115490.22gold quality
right lobe of liverUBERON:000111489.99gold quality
germinal epithelium of ovaryUBERON:000130489.96gold quality
gall bladderUBERON:000211089.93gold quality
adenohypophysisUBERON:000219689.84gold quality
parietal pleuraUBERON:000240089.63gold quality
small intestine Peyer’s patchUBERON:000345489.63gold quality
mucosa of stomachUBERON:000119989.62gold quality
lower lobe of lungUBERON:000894989.59gold quality
lymph nodeUBERON:000002989.28gold quality
bronchial epithelial cellCL:000232888.90gold quality

Single-cell (SCXA)

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

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

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

39 targeting GSAP, 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-3120-5P100.0065.56965
HSA-MIR-5692A100.0074.406850
HSA-MIR-477599.9875.006394
HSA-MIR-205-3P99.9269.923165
HSA-MIR-6885-3P99.7570.363187
HSA-MIR-808499.7369.571760
HSA-MIR-6505-5P99.7369.251595
HSA-MIR-442299.7272.072908
HSA-MIR-425599.7267.701541
HSA-MIR-4677-5P99.7070.091940
HSA-MIR-379-3P99.6969.601524
HSA-MIR-411-3P99.6969.631524
HSA-MIR-10393-5P99.6568.011368
HSA-MIR-432899.5771.064094
HSA-MIR-7844-5P99.5568.561428
HSA-MIR-5571-5P99.4966.991764
HSA-MIR-29A-5P99.0868.591813
HSA-MIR-4717-3P99.0666.341072
HSA-MIR-452-3P99.0166.251241
HSA-MIR-942-3P98.8169.04876
HSA-MIR-519A-2-5P98.7871.741401
HSA-MIR-520B-5P98.7871.741401
HSA-MIR-1178-3P98.5767.09890
HSA-MIR-3136-5P98.5367.68793
HSA-MIR-443998.5367.53793
HSA-MIR-532-5P98.4367.53760
HSA-MIR-4684-5P98.2967.991650
HSA-MIR-892B98.0067.11821
HSA-MIR-4778-5P97.9668.061634
HSA-MIR-15A-3P97.4765.08527

Literature-anchored findings (GeneRIF, showing 8)

  • A gamma-secretase activating protein (GSAP) that selectively increases amyloid-beta production via interactions with both gamma-secretase and its substrate, the amyloid precursor protein carboxy-terminal fragment. (PMID:20811458)
  • Aberrant regulation of gamma-secretase activating protein expression plays a key role in acceleration of gamma-cleavage of beta-secretase-cleaved C-terminal fragment of amyloid precursor protein and accumulation of Abeta in AD brains (PMID:21718343)
  • Protocols for recombinant bacterial expression and purification of potentially important protein GSAP are not successful in generating soluble forms of GSAP that contain well-ordered and homogeneous tertiary structure. (PMID:22681044)
  • gamma-secretase activating protein (GSAP) and imatinib have roles in the regulation of gamma-secretase activity and amyloid-beta generation (PMID:23209290)
  • Its promoter variant contributes to Alzheimer’s disease liability. (PMID:25037285)
  • GSAP cleavage via caspase-3 is regulated and depend upon the availability of 5-Lipoxygenase in Alzheimer’s disease. (PMID:26076991)
  • These data demonstrate that GSAP proteins are differentially dysregulated in severe Alzheimer Disease, but only the full-length form was associated with cognitive test scores in Alzheimer Disease. (PMID:28743126)
  • GSAP regulates lipid homeostasis and mitochondrial function associated with Alzheimer’s disease. (PMID:34156424)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_reriogsapENSDARG00000045481
mus_musculusGsapENSMUSG00000039934
rattus_norvegicusGsapENSRNOG00000028801
drosophila_melanogasterpigeonFBGN0010309

Protein

Protein identifiers

Gamma-secretase-activating proteinA4D1B5 (reviewed: A4D1B5)

Alternative names: Protein pigeon homolog

All UniProt accessions (3): A4D1B5, B7ZL33, H7C0Q7

UniProt curated annotations — full annotation on UniProt →

Function. Regulator of gamma-secretase activity, which specifically activates the production of amyloid-beta protein (amyloid-beta protein 40 and amyloid-beta protein 42), without affecting the cleavage of other gamma-secretase targets such has Notch. The gamma-secretase complex is an endoprotease complex that catalyzes the intramembrane cleavage of integral membrane proteins such as Notch receptors and APP (amyloid-beta precursor protein). Specifically promotes the gamma-cleavage of APP CTF-alpha (also named APP-CTF) by the gamma-secretase complex to generate amyloid-beta, while it reduces the epsilon-cleavage of APP CTF-alpha, leading to a low production of AICD.

Subunit / interactions. Interacts with APP; specifically interacts with the CTF-alpha product of APP. Interacts with the gamma-secretase complex.

Subcellular location. Golgi apparatus. trans-Golgi network.

Tissue specificity. Widely expressed.

Post-translational modifications. The protein is first synthesized as a holoprotein form of 98 kDa and rapidly processed into the gamma-secretase-activating protein 16 kDa C-terminal form, which constitutes the predominant form.

Miscellaneous. The gamma-secretase regulator activity is specifically inhibited by imatinib (also known as STI571 or Gleevec), an anticancer drug that selectively decreases amyloid-beta protein production. Imatinib binds PION/GSAP and acts by preventing PION/GSAP interaction with the gamma-secretase substrate, CTF-alpha. Its role as an activator of amyloid-beta protein production makes it a promising therapeutic target for the treatment of Alzheimer disease.

Similarity. Belongs to the GSAP family.

Isoforms (4)

UniProt IDNamesCanonical?
A4D1B5-11yes
A4D1B5-22
A4D1B5-33
A4D1B5-44

RefSeq proteins (7): NP_001337825, NP_001337826, NP_001337827, NP_001337828, NP_001337829, NP_001337830, NP_059135* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR026172GSAP_famFamily
IPR028010GSAP_C_domDomain

Pfam: PF14959

UniProt features (10 total): splice variant 4, sequence variant 4, chain 2

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-A4D1B5-F180.780.28

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 261 (showing top): BROWNE_HCMV_INFECTION_30MIN_DN, BROWNE_HCMV_INFECTION_6HR_DN, BASSO_B_LYMPHOCYTE_NETWORK, GOBP_POSITIVE_REGULATION_OF_AMIDE_METABOLIC_PROCESS, GOBP_REGULATION_OF_AMYLOID_PRECURSOR_PROTEIN_CATABOLIC_PROCESS, GOCC_TRANS_GOLGI_NETWORK, DEURIG_T_CELL_PROLYMPHOCYTIC_LEUKEMIA_DN, GOBP_AMIDE_METABOLIC_PROCESS, RIGGI_EWING_SARCOMA_PROGENITOR_DN, VANHARANTA_UTERINE_FIBROID_DN, GOBP_REGULATION_OF_AMIDE_METABOLIC_PROCESS, GOBP_AMYLOID_PRECURSOR_PROTEIN_METABOLIC_PROCESS, chr7q11, GNF2_PTPRC, HAN_SATB1_TARGETS_DN

GO Biological Process (2): regulation of proteolysis (GO:0030162), positive regulation of amyloid-beta formation (GO:1902004)

GO Molecular Function (2): amyloid-beta binding (GO:0001540), protein binding (GO:0005515)

GO Cellular Component (2): trans-Golgi network (GO:0005802), Golgi apparatus (GO:0005794)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
proteolysis1
regulation of protein metabolic process1
amyloid-beta formation1
regulation of amyloid-beta formation1
positive regulation of amyloid precursor protein catabolic process1
peptide binding1
binding1
Golgi apparatus subcompartment1
cytoplasm1
endomembrane system1
intracellular membrane-bounded organelle1

Protein interactions and networks

STRING

579 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
GSAPPSEN1P49768845
GSAPAPPP05067827
GSAPPSENENQ9NZ42770
GSAPNCSTNQ92542762
GSAPAPH1AQ96BI3757
GSAPBSGP35613638
GSAPTMED10P49755630
GSAPAPBB1O00213518
GSAPTPPPO94811490
GSAPRHBDL2Q9NX52455
GSAPMRPL15Q9P015455
GSAPUPK1BO75841450
GSAPBACE1P56817439
GSAPAPH1BQ8WW43425
GSAPA0A0J9YYB4A0A0J9YYB4417

IntAct

4 interactions, top by confidence:

ABTypeScore
GSAPAPPpsi-mi:“MI:0915”(physical association)0.400

BioGRID (9): PSEN1 (Affinity Capture-Western), PSENEN (Affinity Capture-Western), NCSTN (Affinity Capture-Western), APP (Affinity Capture-Western), GSAP (Affinity Capture-Western), APP (Biochemical Activity), APP (PCA), HSP90B1 (Proximity Label-MS), GSAP (Cross-Linking-MS (XL-MS))

ESM2 similar proteins: A2RRP1, A4D1B5, E1BGH8, O43149, O88480, P53995, Q12769, Q13129, Q13315, Q3MHH2, Q3TCV3, Q3TUL7, Q3UHA3, Q3UPC7, Q3URV1, Q402B2, Q4R7B1, Q4R9E9, Q5H9S7, Q5RB52, Q5SSH7, Q5ZL79, Q5ZLS8, Q62388, Q63517, Q6P2C0, Q6TNU3, Q86VV8, Q8BJW5, Q8CE72, Q8IV33, Q8K1K4, Q8K2A7, Q8NB91, Q8NG48, Q8R4Y8, Q8TEL6, Q91VB4, Q920I9, Q92674

Diamond homologs: A4D1B5, Q3TCV3

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance98
Likely benign14
Benign2

Top pathogenic / likely-pathogenic (0)

SpliceAI

4936 predictions. Top by Δscore:

VariantEffectΔscore
7:77311445:CAGGG:Cacceptor_gain1.0000
7:77312199:TAAG:Tacceptor_gain1.0000
7:77312208:A:Cacceptor_gain1.0000
7:77320720:CTTA:Cdonor_loss1.0000
7:77320722:TACCA:Tdonor_loss1.0000
7:77320723:ACCAG:Adonor_loss1.0000
7:77320815:TATTG:Tacceptor_gain1.0000
7:77320817:TTG:Tacceptor_gain1.0000
7:77320820:C:CCacceptor_gain1.0000
7:77320824:G:Cacceptor_gain1.0000
7:77320824:G:GCacceptor_gain1.0000
7:77326204:CCA:Cdonor_gain1.0000
7:77326207:CTTA:Cdonor_loss1.0000
7:77326209:TACCA:Tdonor_loss1.0000
7:77326210:A:ACdonor_gain1.0000
7:77326210:A:Cdonor_loss1.0000
7:77326210:ACCAG:Adonor_gain1.0000
7:77326211:C:CCdonor_gain1.0000
7:77326211:CCAG:Cdonor_gain1.0000
7:77326211:CCAGC:Cdonor_gain1.0000
7:77326271:GCC:Gacceptor_gain1.0000
7:77326272:CC:Cacceptor_gain1.0000
7:77326272:CCC:Cacceptor_gain1.0000
7:77326272:CCCTG:Cacceptor_loss1.0000
7:77326273:CC:Cacceptor_gain1.0000
7:77326274:C:CCacceptor_gain1.0000
7:77329331:A:ACdonor_gain1.0000
7:77329332:C:CCdonor_gain1.0000
7:77353042:T:Cacceptor_gain1.0000
7:77353042:T:TCacceptor_gain1.0000

AlphaMissense

5654 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
7:77377327:A:GW214R0.995
7:77377327:A:TW214R0.995
7:77397028:A:CS107R0.994
7:77397028:A:TS107R0.994
7:77397030:T:GS107R0.994
7:77377336:A:GW211R0.991
7:77377336:A:TW211R0.991
7:77397348:A:GL104P0.991
7:77382641:A:CF153L0.990
7:77382641:A:TF153L0.990
7:77382643:A:GF153L0.990
7:77397035:G:TA105D0.988
7:77382597:A:GL168P0.987
7:77382642:A:GF153S0.986
7:77312175:A:GW767R0.985
7:77312175:A:TW767R0.985
7:77314485:A:CF698L0.985
7:77314485:A:TF698L0.985
7:77314487:A:GF698L0.985
7:77397377:A:CS94R0.985
7:77397377:A:TS94R0.985
7:77397379:T:GS94R0.985
7:77330346:A:GW523R0.984
7:77330346:A:TW523R0.984
7:77323729:A:GL614P0.982
7:77377325:C:AW214C0.982
7:77377325:C:GW214C0.982
7:77397365:G:CN98K0.982
7:77397365:G:TN98K0.982
7:77387427:A:GL130S0.981

dbSNP variants (sampled 300 via entrez): RS1000009606 (7:77381365 AAAACAAAG>A), RS1000015116 (7:77353170 T>G), RS1000037356 (7:77414613 C>A), RS1000046717 (7:77394411 T>C), RS1000149616 (7:77386712 G>C,T), RS1000176532 (7:77413179 A>C), RS1000185040 (7:77371340 G>C), RS1000189226 (7:77403232 G>A), RS1000191115 (7:77339197 A>C), RS1000224701 (7:77312357 T>C,G), RS1000236424 (7:77359097 G>A), RS1000269765 (7:77391660 CA>C,CAA), RS1000285995 (7:77346862 G>A), RS1000345259 (7:77383293 C>G,T), RS1000364891 (7:77397196 T>C)

Disease associations

OMIM: gene MIM:613552 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

7 associations (top):

StudyTraitp-value
GCST003628_4Clozapine-induced agranulocytosis/granulocytopenia in treatment-resistant schizophrenia2.000000e-06
GCST005024_97Pursuit maintenance gain4.000000e-06
GCST005038_116Allergic disease (asthma, hay fever or eczema)2.000000e-13
GCST007216_9Crohn’s disease7.000000e-06
GCST010042_86Asthma3.000000e-08
GCST010043_157Asthma1.000000e-08
GCST010577_18Crohn’s disease3.000000e-06

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0008433pursuit maintenance gain measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL3638343 (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: 756 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

MoleculeNamePhasePatents
CHEMBL1770916NIROGACESTAT4756

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

Binding affinities (BindingDB)

2 measured of 2 human assays (2 total across all organisms); most potent 2 below. Values come from heterogeneous assays and are not directly comparable.

LigandMeasureValuePatent
N-[13-[(5-chlorothiophen-2-yl)sulfonylamino]-5-tricyclo[8.2.1.03,8]trideca-3(8),4,6-trienyl]-2-(4-fluorophenoxy)acetamideIC501 nMUS-9023767: γ-Secretase substrates and methods of use
2-[[2-(3,5-difluorophenyl)acetyl]amino]-N-(1-methyl-2-oxo-5-phenyl-3H-1,4-benzodiazepin-3-yl)propanamideIC501.2 nMUS-9023767: γ-Secretase substrates and methods of use

ChEMBL bioactivities

3 potent at pChembl≥5 of 3 total, top 3 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
9.00IC501nMCHEMBL3703681
8.92IC501.2nMCHEMBL3703680
8.21IC506.2nMNIROGACESTAT

PubChem BioAssay actives

1 with measured affinity, of 1 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
Nirogacestat1924179: Inhibition of human gamma secretase by western blot assayic500.0062uM

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, decreases expression, affects expression, decreases methylation, increases expression6
(+)-JQ1 compounddecreases expression, increases expression3
bisphenol Aaffects cotreatment, decreases methylation, affects expression2
Vorinostataffects cotreatment, decreases expression2
Cisplatinaffects cotreatment, increases expression2
Estradiolaffects cotreatment, decreases expression2
Tetrachlorodibenzodioxindecreases expression2
Tretinoindecreases expression, increases expression2
Cyclosporineincreases expression, decreases expression2
aristolochic acid Idecreases expression1
dicrotophosdecreases expression1
methylmercuric chloridedecreases expression1
triphenyl phosphateaffects expression1
trichostatin Adecreases expression, increases expression1
tris(1,3-dichloro-2-propyl)phosphateincreases expression1
cobaltous chloridedecreases expression1
butyraldehydedecreases expression1
potassium chromate(VI)affects cotreatment, decreases expression1
diallyl trisulfideincreases expression1
epigallocatechin gallateaffects cotreatment, decreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
dorsomorphinaffects cotreatment, decreases expression1
MRK 003decreases expression1
jinfukangaffects cotreatment, increases expression1
Resveratrolaffects cotreatment, increases expression1
Sunitinibdecreases expression1
Fulvestrantdecreases methylation, affects cotreatment1
Leflunomidedecreases expression1
Acetaminophendecreases expression1
Air Pollutantsincreases abundance, increases expression1

ChEMBL screening assays

2 unique, capped per target: 2 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL3705978BindingHTRF Biochemical Assay: Among the advantages of this Abeta 42 HTRF gamma-secretase assay is the construction of the biotinylated, recombinant CT6-I45F substrate, which has provided a highly active substrate allowing for increased sensitivitŒ=-Secretase substrates and methods of use

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.