ABCG1

gene
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Also known as ABC8

Summary

ABCG1 (ATP binding cassette subfamily G member 1, HGNC:73) is a protein-coding gene on chromosome 21q22.3, encoding ATP-binding cassette sub-family G member 1 (P45844). Catalyzes the efflux of phospholipids such as sphingomyelin, cholesterol and its oxygenated derivatives like 7beta-hydroxycholesterol and this transport is coupled to hydrolysis of ATP.

The protein encoded by this gene is a member of the superfamily of ATP-binding cassette (ABC) transporters. ABC proteins transport various molecules across extra- and intra-cellular membranes. ABC genes are divided into seven distinct subfamilies (ABC1, MDR/TAP, MRP, ALD, OABP, GCN20, White). This protein is a member of the White subfamily. It is involved in macrophage cholesterol and phospholipids transport, and may regulate cellular lipid homeostasis in other cell types. Six alternative splice variants have been identified.

Source: NCBI Gene 9619 — RefSeq curated summary.

At a glance

  • GWAS associations: 9
  • Clinical variants (ClinVar): 146 total — 29 pathogenic, 2 likely-pathogenic
  • MANE Select transcript: NM_016818

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:73
Approved symbolABCG1
NameATP binding cassette subfamily G member 1
Location21q22.3
Locus typegene with protein product
StatusApproved
AliasesABC8
Ensembl geneENSG00000160179
Ensembl biotypeprotein_coding
OMIM603076
Entrez9619

Gene structure

Transcript identifiers

Ensembl transcripts: 15 — 11 protein_coding, 3 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000343687, ENST00000347800, ENST00000361802, ENST00000398437, ENST00000398449, ENST00000398457, ENST00000450121, ENST00000462050, ENST00000467818, ENST00000472587, ENST00000496783, ENST00000878297, ENST00000878298, ENST00000878299, ENST00000878300

RefSeq mRNA: 6 — MANE Select: NM_016818 NM_004915, NM_016818, NM_207174, NM_207627, NM_207628, NM_207629

CCDS: CCDS13681, CCDS13682, CCDS13683, CCDS42937, CCDS42938

Canonical transcript exons

ENST00000398449 — 15 exons

ExonStartEnd
ENSE000034778894227689542276945
ENSE000034964644229149842291656
ENSE000035055824228588042285994
ENSE000035066664222567142225914
ENSE000035231954227107042271187
ENSE000035432734227330342273435
ENSE000035443494228821142288312
ENSE000035474414228227442282419
ENSE000035531014228788942288037
ENSE000036702394229109242291192
ENSE000036742984229454242294660
ENSE000036880854229005042290218
ENSE000036885264229616442297244
ENSE000036896344228456042284683
ENSE000039007604221914042219304

Expression profiles

Bgee: expression breadth ubiquitous, 270 present calls, max score 92.24.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 13.0865 / max 369.0332, expressed in 1115 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter IDTPM avgSamples expressed
18928112.79841110
1892820.1902103
1892800.075631
1892790.022310

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
right adrenal glandUBERON:000123392.24gold quality
left adrenal glandUBERON:000123492.04gold quality
right adrenal gland cortexUBERON:003582791.80gold quality
jejunal mucosaUBERON:000039991.70gold quality
left adrenal gland cortexUBERON:003582591.32gold quality
adrenal cortexUBERON:000123591.30gold quality
adrenal glandUBERON:000236990.98gold quality
spleenUBERON:000210690.09gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451189.68gold quality
lower lobe of lungUBERON:000894989.59gold quality
amniotic fluidUBERON:000017389.38gold quality
medial globus pallidusUBERON:000247789.04gold quality
upper lobe of left lungUBERON:000895288.98gold quality
upper lobe of lungUBERON:000894888.86gold quality
tendon of biceps brachiiUBERON:000818888.29gold quality
right lungUBERON:000216788.18gold quality
pigmented layer of retinaUBERON:000178287.56gold quality
epithelium of nasopharynxUBERON:000195187.56gold quality
lungUBERON:000204887.42gold quality
visceral pleuraUBERON:000240187.17gold quality
globus pallidusUBERON:000187587.01gold quality
bloodUBERON:000017886.65gold quality
islet of LangerhansUBERON:000000686.59gold quality
mucosa of paranasal sinusUBERON:000503085.91gold quality
duodenumUBERON:000211485.67gold quality
penisUBERON:000098985.59gold quality
choroid plexus epitheliumUBERON:000391185.50gold quality
colonic mucosaUBERON:000031785.13gold quality
pericardiumUBERON:000240785.12gold quality
lymph nodeUBERON:000002985.10gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes7.82
E-MTAB-6386no148.29

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NFKB, NR0B2, NR1H2, NR1H3, PPARG, RARA, RXRB, SP1, ZNF202

miRNA regulators (miRDB)

50 targeting ABCG1, 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-366299.9973.825684
HSA-MIR-548AW99.9972.573559
HSA-MIR-314899.9775.066478
HSA-MIR-9-3P99.9670.882068
HSA-MIR-338-5P99.9272.342951
HSA-MIR-329-3P99.9166.561234
HSA-MIR-362-3P99.9166.381267
HSA-MIR-612499.8769.783551
HSA-MIR-221-5P99.8665.451052
HSA-MIR-807399.8665.211118
HSA-MIR-132-3P99.7370.561424
HSA-MIR-212-3P99.7370.651424
HSA-MIR-430699.7270.503630
HSA-MIR-56799.6368.571219
HSA-MIR-24-3P99.5969.971934
HSA-MIR-141-5P99.5767.86897
HSA-MIR-6740-3P99.4868.491392
HSA-MIR-208A-5P99.4270.831913
HSA-MIR-208B-5P99.4270.831952
HSA-MIR-185-5P99.3568.602497
HSA-MIR-464499.3569.122514
HSA-MIR-520F-5P99.3470.401632
HSA-MIR-6505-3P99.3467.391071
HSA-MIR-1207-3P98.9966.221532
HSA-MIR-6876-3P98.9765.69765
HSA-MIR-62698.8966.21762
HSA-MIR-38498.7167.341229
HSA-MIR-1301-3P98.6468.271071
HSA-MIR-504798.6468.621035
HSA-MIR-6776-5P98.5467.431304

Literature-anchored findings (GeneRIF, showing 40)

  • ABCG1 is not required for apolipoprotein A-1-mediated endothelial cholesterol efflux from vascular endothelial cells. (PMID:15492319)
  • Analysis of the effect of the Su(Hw) insulator on the expression of the miniwhite gene in Drosophila melanogaster. (PMID:15584507)
  • ABCG1 redistributes cholesterol to cell-surface domains where it becomes accessible for removal by HDL, demonstrating its direct role of ABCG1 in cellular cholesterol transport (PMID:15994327)
  • characterization of two LXR response elements in first & second introns of the ABCG1 gene & demonstrate their function in cultured macrophage & liver cells; studies clarify mechanism of upregulation of the ABCG1 gene by oxysterols in macrophages & liver (PMID:16024918)
  • Abcg1 is a key gene involved in both cholesterol efflux to HDL and in tissue lipid homeostasis (PMID:16054053)
  • synergistic relationship between ABCA1 and ABCG1 in peripheral tissues, where ABCA1 lipidates any lipid-poor/free apoA-I to generate nascent or pre-beta-HDL (PMID:16357317)
  • ABCG1 was localized to the plasma membrane in HEK293 cells and mediate the efflux of cholesterol and choline phospholipids. (PMID:16702602)
  • provides the first evidence that unsaturated fatty acids suppress ABCG1 gene expression by a mechanism which involves the binding of LXR/RXR to the promoters (PMID:16730733)
  • Macrophage ABCG1 deficiency does lead to heavy lipid accumulation in macrophages of the lung, and also a moderately significant effect on atherosclerotic lesion development was observed. (PMID:16857950)
  • The splice variant ABCG1(666) may be the most prominent form of functional ABCG1 expressed in the human. (PMID:16870176)
  • ABCG1 and ABCG4 act in concert with ABCA1 to maximize the removal of excess cholesterol from cells and to generate cholesterol-rich lipoprotein particles (PMID:16902247)
  • NPC1 protein function is non-essential for the trafficking and removal of cellular cholesterol by ApoAI if the down-stream defects in ABCA1 and ABCG1 regulation in NPC disease cells are corrected using an LXR agonist (PMID:17020879)
  • Two genes of the cholesterol efflux system (ABCA1 and ABCG1) were down-regulated in HCAECs exposed to uraemic plasma. (PMID:17082211)
  • ABCG1 plays a significant role in the regulation of neuronal cholesterol efflux to apolipoprotein E discs. (PMID:17121837)
  • These results indicate that positional and geometrical isomers of CLAs have specific effects on gene expression of human macrophages and that t9,t11-CLA activates ABCG1 by a SREBP-1c-dependent mechanism. (PMID:17141191)
  • In intermediate phenotypes of suicidal behavior,ABCG1 might act on suicidal behavior through these traits. (PMID:17187964)
  • Results show that ABCG1 mRNA expression increased in response to dexamethasone in primary rat hepatocytes however, the effect was absent or inhibitory in human HepG2 cells and THP-1 macrophages due to low glucocorticoid receptor levels. (PMID:17241464)
  • altered cholesterol metabolism and amyloid precursor protein trafficking mediated by ABCG1 may contribute to the accelerated onset of Alzheimer’s disease neuropathology in Down syndrome (PMID:17293612)
  • ABCG1 protects against 7beta-HC-induced cell death, an important role in prevention of neurodegenerative and cardiovascular disease. (PMID:17408620)
  • These results suggest that the ABCG1-mediated efflux of cholesterol and sphingomyelin (SM) is dependent on the cellular SM level and distribution of cholesterol in the plasma membrane. (PMID:17761632)
  • ABCG1 deficiency in pulmonary alveolar proteinosis alveolar macrophages is attributable to the absence of a GM-CSF-mediated PPARgamma pathway. (PMID:17848583)
  • No significant gender effect in the capacity of serum from nondyslipidemic subjects to mediate free cholesterol efflux via the ABCG1 transporter pathway was detected (PMID:18057374)
  • ABCG1 expression and cholesterol efflux are reduced in patients with type 2 diabetes mellitus (PMID:18490524)
  • Overexpression of human ABCG1 does not affect atherosclerosis in fat-fed ApoE-deficient mice. (PMID:18599800)
  • Results suggest a causative relationship between ABCG1 function and apoptotic cell death in macrophages and in other cell types. (PMID:18619413)
  • The reduction in ABCG1 is associated with impairment in cholesterol efflux and may contribute to accelerated foam cell formation in diabetic patients. (PMID:18640393)
  • ABCG1 increases cell membrane free cholesterol pools and changes its rate of desorption into the aqueous phase without enhancing the association with the acceptor. (PMID:18827283)
  • Human endothelial cells of the placental barrier efficiently deliver cholesterol to the fetal circulation via ABCA1 and ABCG1. (PMID:19168441)
  • Western blot experiments demonstrate that ABCA1 and ABCG1 protein levels are synchronously suppressed by high glucose levels and the w6-unsaturated fatty acid linoleic acid. (PMID:19287193)
  • Data describe the requirement of GPS2 for ABCG1 gene transcription and cholesterol efflux from macrophages, and implicate GPS2 in facilitating LXRalpha/beta recruitment to an ABCG1-specific promoter/enhancer unit upon ligand activation. (PMID:19481530)
  • a novel ABCG1 -257T>G promoter polymorphism influences CAD severity in Japanese men; ABCG1 transcription activity was significantly lower in the G allele of -257T>G polymorphism (PMID:19556716)
  • Results indicated that the ABCG1-mediated cell cholesterol efflux can be efficiently driven by a small discoidal phospholipid-containing particle resembling plasma pre-beta1 HDL. (PMID:19839639)
  • ABCG1 mediates oxysterol efflux from oxLDL-loaded macrophages, and the exported oxysterol by ABCG1 pathway can be selectively taken up by hepatocytes. (PMID:19895785)
  • results provide evidence that TGF-beta1 up-regulates expressions of ABCA1, ABCG1 and SR-BI through the LXR alpha pathway in THP-1 macrophage-derived foam cells (PMID:20057170)
  • In women, significant relationships were found between rs1893590 polymorphisms (ABCG1 gene) and HDLcholesterol plasma concentrations (PMID:20170916)
  • AMPK activation prevents ypercholesterolemia-mediated endothelial dysfunction and the underlying mechanism may involve an increased efflux of cholesterol and 7-oxysterols via the ABCG1 pathway. (PMID:20395595)
  • ABCG1 is expressed in cultured human keratinocytes and murine epidermis (PMID:20675829)
  • Postprandial lipemia enhanced SR-BI and ABCG1-dependent efflux to large HDL2 particles. (PMID:20713650)
  • The promotion of cholesterol efflux via ATP-binding cassette transporter G1(ABCG1) results in a reduced inhibitory interaction of endothelial nitric oxide synthase with caveolin-1. (PMID:20798376)
  • Two SNPs of the ABCG1is associated with the susceptibility and severity of coronary atherosclerotic disease in Chinese Han population. (PMID:20931526)

Cross-species orthologs

14 orthologs

OrganismSymbolGene ID
danio_rerioabcg1ENSDARG00000063475
mus_musculusAbcg1ENSMUSG00000024030
rattus_norvegicusAbcg1ENSRNOG00000001158
drosophila_melanogasterstFBGN0003515
drosophila_melanogasterwFBGN0003996
drosophila_melanogasterAtetFBGN0020762
drosophila_melanogasterCG4822FBGN0031220
drosophila_melanogasterCG31689FBGN0031449
drosophila_melanogasterCG9663FBGN0031516
drosophila_melanogasterCG31121FBGN0051121
drosophila_melanogasterCG32091FBGN0052091
caenorhabditis_elegansWBGENE00006522
caenorhabditis_elegansWBGENE00015479
caenorhabditis_elegansWBGENE00017179

Paralogs (4): ABCG2 (ENSG00000118777), ABCG5 (ENSG00000138075), ABCG8 (ENSG00000143921), ABCG4 (ENSG00000172350)

Protein

Protein identifiers

ATP-binding cassette sub-family G member 1P45844 (reviewed: P45844)

Alternative names: ATP-binding cassette transporter 8, White protein homolog

All UniProt accessions (3): P45844, C9JKD9, E9PGV9

UniProt curated annotations — full annotation on UniProt →

Function. Catalyzes the efflux of phospholipids such as sphingomyelin, cholesterol and its oxygenated derivatives like 7beta-hydroxycholesterol and this transport is coupled to hydrolysis of ATP. The lipid efflux is ALB-dependent. Is an active component of the macrophage lipid export complex. Could also be involved in intracellular lipid transport processes. The role in cellular lipid homeostasis may not be limited to macrophages. Prevents cell death by transporting cytotoxic 7beta-hydroxycholesterol.

Subunit / interactions. Homodimer; disulfide-linked. Homooligomer. May form heterodimers with several heterologous partners of the ABCG subfamily. Forms heterodimers with ABCG4. Interacts with CAV1; this interaction regulates ABCG1-mediated cholesterol efflux.

Subcellular location. Endoplasmic reticulum membrane. Golgi apparatus membrane. Cell membrane.

Tissue specificity. Expressed in several tissues. Expressed in macrophages; expression is increased in macrophages from patients with Tangier disease.

Post-translational modifications. Palmitoylation at Cys-315 seems important for trafficking from the endoplasmic reticulum.

Activity regulation. The cholesterol efflux is enhanced by APOA1.

Induction. Strongly induced in monocyte-derived macrophages during cholesterol influx. Conversely, mRNA and protein expression are suppressed by lipid efflux. Induction is mediated by the liver X receptor/retinoid X receptor (LXR/RXR) pathway. Not induced by bacterial lipopolysaccharides (LPS). Repressed by ZNF202.

Similarity. Belongs to the ABC transporter superfamily. ABCG family. Eye pigment precursor importer (TC 3.A.1.204) subfamily.

Isoforms (8)

UniProt IDNamesCanonical?
P45844-11yes
P45844-22, J
P45844-33, ABDE
P45844-44, G
P45844-55, F
P45844-66, HI
P45844-77, C
P45844-88

RefSeq proteins (6): NP_004906, NP_058198, NP_997057, NP_997510, NP_997511, NP_997512 (=MANE)

Domains & families (InterPro)

IDNameType
IPR003439ABC_transporter-like_ATP-bdDomain
IPR003593AAA+_ATPaseDomain
IPR005284Pigment_permease/AbcgFamily
IPR013525ABC2_TMDomain
IPR017871ABC_transporter-like_CSConserved_site
IPR027417P-loop_NTPaseHomologous_superfamily
IPR043926ABCG_domDomain
IPR050352ABCG_transportersFamily

Pfam: PF00005, PF01061, PF19055

Catalyzed reactions (Rhea), 4 shown:

  • a sphingomyelin(in) + ATP + H2O = a sphingomyelin(out) + ADP + phosphate + H(+) (RHEA:38903)
  • cholesterol(in) + ATP + H2O = cholesterol(out) + ADP + phosphate + H(+) (RHEA:39051)
  • 7beta-hydroxycholesterol(in) + ATP + H2O = 7beta-hydroxycholesterol(out) + ADP + phosphate + H(+) (RHEA:39795)
  • an N-(acyl)-sphingosylphosphocholine(in) + ATP + H2O = an N-(acyl)-sphingosylphosphocholine(out) + ADP + phosphate + H(+) (RHEA:46468)

UniProt features (95 total): helix 22, strand 17, mutagenesis site 16, topological domain 7, splice variant 7, turn 7, transmembrane region 6, lipid moiety-binding region 5, sequence conflict 3, domain 2, chain 1, binding site 1, sequence variant 1

Structure

Experimental structures (PDB)

5 structures.

PDBMethodResolution (Å)
7R8DELECTRON MICROSCOPY3.2
7FDVELECTRON MICROSCOPY3.26
7R8CELECTRON MICROSCOPY3.7
7R8EELECTRON MICROSCOPY3.7
7OZ1ELECTRON MICROSCOPY4

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P45844-F181.340.56

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (1): 118–125

Post-translational modifications (5): 30, 154, 315, 394, 406

Mutagenesis-validated functional residues (16):

PositionPhenotype
30no significant effect.
124affects atp binding. does not affect efflux of 7beta-hydroxycholesterol. does not affect localization at plasma membrane
154no significant effect.
315significantly decreases abcg1-mediated cholesterol efflux.
394no significant effect.
406no significant effect.
491significantly reduces interaction with cav1; when associated with a-493. significantly reduces abcg1-mediated cholestero
493significantly reduces interaction with cav1; when associated with a-491. significantly reduces abcg1-mediated cholestero
498significantly reduces interaction with cav1; when associated with a-499. significantly reduces abcg1-mediated cholestero
498does not affect abcg1-mediated cholesterol efflux; when associated with i-499.
498dramatically reduces the ability of abcg1 to mediate cholesterol efflux; when associated with i-499.
499significantly reduces interaction with cav1; when associated with a-498. significantly reduces abcg1-mediated cholestero
499does not affect abcg1-mediated cholesterol efflux; when associated with i-498.
499dramatically reduces the ability of abcg1 to mediate cholesterol efflux; when associated with i-498.

Function

Pathways and Gene Ontology

Reactome pathways

10 pathways

IDPathway
R-HSA-1369062ABC transporters in lipid homeostasis
R-HSA-8964058HDL remodeling
R-HSA-9029569NR1H3 & NR1H2 regulate gene expression linked to cholesterol transport and efflux
R-HSA-162582Signal Transduction
R-HSA-174824Plasma lipoprotein assembly, remodeling, and clearance
R-HSA-382551Transport of small molecules
R-HSA-382556ABC-family protein mediated transport
R-HSA-8963899Plasma lipoprotein remodeling
R-HSA-9006931Signaling by Nuclear Receptors
R-HSA-9024446NR1H2 and NR1H3-mediated signaling

MSigDB gene sets: 437 (showing top): GOBP_CELLULAR_RESPONSE_TO_LIPOPROTEIN_PARTICLE_STIMULUS, GOBP_REGULATION_OF_LIPID_STORAGE, GOBP_STEROL_HOMEOSTASIS, YANG_BREAST_CANCER_ESR1_BULK_UP, GOBP_POSITIVE_REGULATION_OF_AMIDE_METABOLIC_PROCESS, GOBP_POSITIVE_REGULATION_OF_PROTEIN_LOCALIZATION, GOBP_POSITIVE_REGULATION_OF_CHOLESTEROL_EFFLUX, GOBP_REGULATION_OF_CHOLESTEROL_EFFLUX, GOCC_CELL_SURFACE, THEILGAARD_NEUTROPHIL_AT_SKIN_WOUND_DN, LINDGREN_BLADDER_CANCER_CLUSTER_3_DN, GOBP_POSITIVE_REGULATION_OF_STEROL_TRANSPORT, MAHADEVAN_IMATINIB_RESISTANCE_DN, GOBP_POSITIVE_REGULATION_OF_ALCOHOL_BIOSYNTHETIC_PROCESS, GOBP_REGULATION_OF_MEMBRANE_LIPID_DISTRIBUTION

GO Biological Process (26): cholesterol metabolic process (GO:0008203), negative regulation of macrophage derived foam cell differentiation (GO:0010745), positive regulation of cholesterol efflux (GO:0010875), negative regulation of cholesterol storage (GO:0010887), intracellular cholesterol transport (GO:0032367), cholesterol efflux (GO:0033344), phospholipid efflux (GO:0033700), response to lipid (GO:0033993), low-density lipoprotein particle remodeling (GO:0034374), high-density lipoprotein particle remodeling (GO:0034375), glycoprotein transport (GO:0034436), cholesterol homeostasis (GO:0042632), amyloid precursor protein catabolic process (GO:0042987), reverse cholesterol transport (GO:0043691), positive regulation of cholesterol biosynthetic process (GO:0045542), positive regulation of protein secretion (GO:0050714), transmembrane transport (GO:0055085), phospholipid homeostasis (GO:0055091), cellular response to high density lipoprotein particle stimulus (GO:0071403), regulation of cholesterol metabolic process (GO:0090181), positive regulation of amyloid-beta formation (GO:1902004), xenobiotic detoxification by transmembrane export across the plasma membrane (GO:1990961), lipid transport (GO:0006869), negative regulation of lipid storage (GO:0010888), cholesterol transport (GO:0030301), lipid translocation (GO:0034204)

GO Molecular Function (16): ATP binding (GO:0005524), phospholipid binding (GO:0005543), cholesterol binding (GO:0015485), ATP hydrolysis activity (GO:0016887), toxin transmembrane transporter activity (GO:0019534), ABC-type sterol transporter activity (GO:0034041), protein homodimerization activity (GO:0042803), ADP binding (GO:0043531), protein heterodimerization activity (GO:0046982), phosphatidylcholine floppase activity (GO:0090554), cholesterol transfer activity (GO:0120020), floppase activity (GO:0140328), nucleotide binding (GO:0000166), protein binding (GO:0005515), protein dimerization activity (GO:0046983), ABC-type transporter activity (GO:0140359)

GO Cellular Component (12): Golgi membrane (GO:0000139), nucleoplasm (GO:0005654), mitochondrion (GO:0005739), endosome (GO:0005768), endoplasmic reticulum membrane (GO:0005789), Golgi apparatus (GO:0005794), plasma membrane (GO:0005886), external side of plasma membrane (GO:0009897), recycling endosome (GO:0055037), endoplasmic reticulum (GO:0005783), endomembrane system (GO:0012505), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-7 pathways:

CategoryPathways
Transport of small molecules2
ABC-family protein mediated transport1
Plasma lipoprotein remodeling1
NR1H2 and NR1H3-mediated signaling1
Plasma lipoprotein assembly, remodeling, and clearance1
Signal Transduction1
Signaling by Nuclear Receptors1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cholesterol transport3
cellular anatomical structure3
cytoplasm3
intracellular membrane-bounded organelle3
endomembrane system3
plasma lipoprotein particle remodeling2
adenyl ribonucleotide binding2
protein dimerization activity2
plasma membrane2
sterol metabolic process1
secondary alcohol metabolic process1
macrophage derived foam cell differentiation1
regulation of macrophage derived foam cell differentiation1
negative regulation of cell differentiation1
regulation of cholesterol efflux1
positive regulation of cholesterol transport1
cholesterol efflux1
cholesterol storage1
regulation of cholesterol storage1
negative regulation of lipid storage1
intracellular anatomical structure1
intracellular sterol transport1
phospholipid transport1
response to chemical1
protein transport1
carbohydrate derivative transport1
sterol homeostasis1
amyloid precursor protein metabolic process1
cholesterol biosynthetic process1
regulation of cholesterol biosynthetic process1
positive regulation of cholesterol metabolic process1
positive regulation of sterol biosynthetic process1
positive regulation of alcohol biosynthetic process1
protein secretion1
regulation of protein secretion1
positive regulation of protein transport1
positive regulation of secretion by cell1
transport1
cellular process1
lipid homeostasis1

Protein interactions and networks

STRING

2106 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ABCG1APOA1P02647997
ABCG1APOEP02649928
ABCG1SREBF2Q12772875
ABCG1XPR1Q9UBH6873
ABCG1NR1H3Q13133863
ABCG1SCARB1Q8WTV0848
ABCG1SREBF1P36956841
ABCG1CYP7A1P22680813
ABCG1SCARB2Q14108809
ABCG1NR1H2P55055782
ABCG1NPC1O15118775
ABCG1PPARGP37231758
ABCG1MYLIPQ8WY64741
ABCG1CETPP11597737
ABCG1APOA2P02652723

IntAct

3 interactions, top by confidence:

ABTypeScore
ABCG1YARS1psi-mi:“MI:0914”(association)0.350
ADGRG5SLC33A1psi-mi:“MI:0914”(association)0.350

BioGRID (69): ABCG1 (Affinity Capture-MS), ABCG1 (Affinity Capture-MS), ABCG1 (Affinity Capture-MS), Kif2c (Affinity Capture-MS), Nup214 (Affinity Capture-MS), Tyms (Affinity Capture-MS), Ppfibp1 (Affinity Capture-MS), Ap2a2 (Affinity Capture-MS), Tmem66 (Affinity Capture-MS), LOC100760824 (Affinity Capture-MS), Vps53 (Affinity Capture-MS), Pfas (Affinity Capture-MS), Usp9x (Affinity Capture-MS), Ikbkap (Affinity Capture-MS), Vps16 (Affinity Capture-MS)

ESM2 similar proteins: A0A0M3R8G1, A0A0M4FLW6, A9YWR6, B8ALI0, D3GE74, D4AYW0, H6WS93, H6WS94, O81016, O95259, P29973, P45844, P50530, P93025, Q00194, Q00195, Q03720, Q16281, Q28279, Q2PCF1, Q2QV81, Q5W274, Q5Z9S8, Q60603, Q62398, Q62927, Q63472, Q64343, Q7PC84, Q7PC86, Q7PC87, Q84K47, Q8GU83, Q8GU92, Q8H8V7, Q8RWI9, Q8RXN0, Q90805, Q93YS4, Q9C8J8

Diamond homologs: A0A059J0G5, A0A0M3R8G1, A0A0M4FLW6, A0A1U8QKX8, A2WSH0, A9YWR6, B8ALI0, B9G300, B9G5Y5, C7J6G6, D3GE74, D3ZCM3, F2PLH2, F2RSQ6, F2SHL1, H9BZ66, O24367, O80946, O81016, P10090, P25371, P45843, P45844, P58428, Q05360, Q08234, Q0JLC5, Q16928, Q17320, Q27256, Q2QV81, Q4GZT4, Q4WFQ4, Q54CG0, Q55DA0, Q55DR1, Q55DW4, Q55GB1, Q5MB13, Q64343

SIGNOR signaling

1 interactions.

AEffectBMechanism
ABCG1up-regulatesHDL_assembly

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic29
Likely pathogenic2
Uncertain significance68
Likely benign12
Benign17

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1341200GRCh37/hg19 21q11.2-22.3(chr21:15006457-48097372)x3Pathogenic
1458311NC_000021.8:g.(?43160998)(47865240_?)delPathogenic
1526706GRCh37/hg19 21q11.2-22.3(chr21:15285841-48097372)Pathogenic
1526720GRCh37/hg19 21q22.2-22.3(chr21:42410406-48097372)Pathogenic
1703616GRCh37/hg19 21q22.3(chr21:42679089-48097372)Pathogenic
1705932GRCh37/hg19 21q11.2-22.3(chr21:14420615-48080926)x3Pathogenic
253403GRCh37/hg19 21q11.2-22.3(chr21:15410701-48090317)x3Pathogenic
253477GRCh37/hg19 21q22.2-22.3(chr21:39841248-44652723)x3Pathogenic
253512GRCh37/hg19 21q11.2-22.3(chr21:15538655-48080926)x1Pathogenic
2684910GRCh37/hg19 21q11.2-22.3(chr21:15006458-45674637)x3Pathogenic
2684914GRCh37/hg19 21q22.11-22.3(chr21:33015681-48097372)x3Pathogenic
3062420GRCh37/hg19 21q21.3-22.3(chr21:30685776-48097372)x3Pathogenic
3062421GRCh37/hg19 21q22.3(chr21:43603041-48097372)x1Pathogenic
3062423GRCh37/hg19 21q21.3-22.3(chr21:26929299-48097372)x3Pathogenic
3062426GRCh37/hg19 21q22.3(chr21:43369956-48097372)x1Pathogenic
3062428GRCh37/hg19 21q22.12-22.3(chr21:35872675-48097372)x1Pathogenic
3062429GRCh37/hg19 21q22.11-22.3(chr21:34092685-48097372)x3Pathogenic
3242283GRCh37/hg19 21q11.2-22.3(chr21:15380398-48100790)x3Pathogenic
3391864GRCh37/hg19 21q22.11-22.3(chr21:34586759-48097372)x3Pathogenic
394099GRCh37/hg19 21q22.13-22.3(chr21:38790552-43619940)x1Pathogenic
394309GRCh37/hg19 21q11.2-22.3(chr21:14771770-48080867)x3Pathogenic
443002GRCh37/hg19 21q22.13-22.3(chr21:38699545-48097372)x1Pathogenic
443072GRCh37/hg19 21q22.2-22.3(chr21:41254101-48097372)x1Pathogenic
443167GRCh37/hg19 21q22.3(chr21:43498966-48097372)x1Pathogenic
443979GRCh37/hg19 21q11.2-22.3(chr21:15006458-48097372)Pathogenic
59013GRCh37/hg19 21q22.1-22.3(chr21:35527952-44298520)x1Pathogenic
625618GRCh37/hg19 21q22.2-22.3(chr21:41537095-46914745)Pathogenic
816508GRCh37/hg19 21q22.2-22.3(chr21:42044877-48100155)x3Pathogenic
983157GRCh37/hg19 21q11.2-22.3(chr21:14629063-48090317)x3Pathogenic
2684917GRCh37/hg19 21q22.3(chr21:43687354-48097372)x3Likely pathogenic

SpliceAI

2507 predictions. Top by Δscore:

VariantEffectΔscore
21:42225670:GA:Gacceptor_gain1.0000
21:42225907:G:GTdonor_gain1.0000
21:42271064:TTGCA:Tacceptor_loss1.0000
21:42271065:TGCA:Tacceptor_loss1.0000
21:42271066:GCA:Gacceptor_loss1.0000
21:42271067:CA:Cacceptor_loss1.0000
21:42271068:A:AGacceptor_gain1.0000
21:42271068:AG:Aacceptor_gain1.0000
21:42271069:G:GCacceptor_loss1.0000
21:42271069:G:GGacceptor_gain1.0000
21:42271069:GG:Gacceptor_gain1.0000
21:42273292:T:Aacceptor_gain1.0000
21:42273293:G:Aacceptor_gain1.0000
21:42273298:T:TAacceptor_gain1.0000
21:42273299:GCA:Gacceptor_loss1.0000
21:42273300:CAGGG:Cacceptor_gain1.0000
21:42273301:A:AGacceptor_gain1.0000
21:42273301:A:ATacceptor_loss1.0000
21:42273301:AG:Aacceptor_gain1.0000
21:42273301:AGG:Aacceptor_gain1.0000
21:42273301:AGGGA:Aacceptor_gain1.0000
21:42273302:G:Cacceptor_loss1.0000
21:42273302:G:GAacceptor_gain1.0000
21:42273302:GG:Gacceptor_gain1.0000
21:42273302:GGG:Gacceptor_gain1.0000
21:42273302:GGGA:Gacceptor_gain1.0000
21:42273302:GGGAG:Gacceptor_gain1.0000
21:42273424:G:GTdonor_gain1.0000
21:42273432:GATG:Gdonor_gain1.0000
21:42273436:G:GGdonor_gain1.0000

AlphaMissense

4368 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
21:42271135:G:CG118R1.000
21:42271135:G:TG118C1.000
21:42271136:G:AG118D1.000
21:42271145:G:AG121E1.000
21:42271147:G:CA122P1.000
21:42271150:G:TG123W1.000
21:42271151:G:AG123E1.000
21:42271153:A:CK124Q1.000
21:42271154:A:TK124M1.000
21:42271156:T:CS125P1.000
21:42271157:C:TS125F1.000
21:42273390:G:CQ164H1.000
21:42273390:G:TQ164H1.000
21:42276908:T:CL184P1.000
21:42282354:G:CK223N1.000
21:42282354:G:TK223N1.000
21:42282359:T:CL225P1.000
21:42282368:C:AA228E1.000
21:42282377:T:CL231P1.000
21:42282395:T:AV237D1.000
21:42282407:A:CD241A1.000
21:42282407:A:GD241G1.000
21:42282407:A:TD241V1.000
21:42282409:G:AE242K1.000
21:42282410:A:GE242G1.000
21:42282410:A:TE242V1.000
21:42282411:G:CE242D1.000
21:42282411:G:TE242D1.000
21:42282413:C:AP243H1.000
21:42282413:C:GP243R1.000

dbSNP variants (sampled 300 via entrez): RS1000007851 (21:42281900 T>G), RS1000037562 (21:42274925 G>A), RS1000047950 (21:42202643 G>A,T), RS1000051995 (21:42253386 C>G,T), RS1000058752 (21:42220615 G>A), RS1000103598 (21:42244839 G>A), RS1000105698 (21:42207143 A>G), RS1000117733 (21:42217269 G>A), RS1000158577 (21:42215119 G>A), RS1000163422 (21:42253005 C>A,T), RS1000213950 (21:42220574 A>C,G), RS1000214686 (21:42212711 T>A), RS1000272592 (21:42223061 A>C), RS1000304736 (21:42255785 C>A), RS1000323056 (21:42292046 A>G)

Disease associations

OMIM: gene MIM:603076 | disease phenotypes: MIM:190685, MIM:616341, MIM:254800

GenCC curated gene-disease

Mondo (4): Down syndrome (MONDO:0008608), developmental and epileptic encephalopathy, 30 (MONDO:0014595), progressive myoclonus epilepsy (MONDO:0020074), neurodevelopmental disorder (MONDO:0700092)

Orphanet (3): Down syndrome (Orphanet:870), Progressive myoclonic epilepsy type 1 (Orphanet:308), Progressive myoclonic epilepsy (Orphanet:98261)

HPO phenotypes

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

GWAS associations

9 associations (top):

StudyTraitp-value
GCST001356_17Gout1.000000e-07
GCST002337_7Amyotrophic lateral sclerosis (sporadic)5.000000e-07
GCST002592_13Neuritic plaque8.000000e-06
GCST002592_34Neuritic plaque8.000000e-09
GCST002593_26Dementia and core Alzheimer’s disease neuropathologic changes7.000000e-06
GCST002593_50Dementia and core Alzheimer’s disease neuropathologic changes7.000000e-06
GCST003132_5Eating disorder in bipolar disorder4.000000e-07
GCST003918_1Idiopathic osteonecrosis of the femoral head2.000000e-07
GCST010242_121HDL cholesterol levels2.000000e-08

EFO canonical traits (4, from GWAS)

EFO IDTrait name
EFO:0006798neuritic plaque measurement
EFO:0006801Alzheimer’s disease neuropathologic change
EFO:1001930idiopathic osteonecrosis of the femoral head
EFO:0004612high density lipoprotein cholesterol measurement

MeSH disease descriptors (3)

DescriptorNameTree numbers
D004314Down SyndromeC10.597.606.360.220; C16.131.077.327; C16.131.260.260; C16.320.180.260
D020191Myoclonic Epilepsies, ProgressiveC10.228.140.490.375.130.650; C10.228.140.490.493.063.650
D065886Neurodevelopmental DisordersF03.625

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

PharmGKB clinical annotations

1 annotations.

VariantTypeLevelDrugsPhenotypes
rs225440Toxicity3fluorouracil;irinotecan;leucovorinColorectal Neoplasms

PharmGKB variants

4 variants.

VariantGenesLevelScore#Clin annotsDrugs
rs182694ABCG10.000
rs225440ABCG133.251fluorouracil;irinotecan;leucovorin
rs425215ABCG10.000
rs492338ABCG10.000

GtoPdb / IUPHAR curated pharmacology

(IUPHAR/BPS Guide to Pharmacology — expert-curated)

Target class: transporter — ABCG subfamily

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
T0901317decreases reaction, increases expression, increases reaction, affects cotreatment7
Valproic Acidaffects expression, affects methylation, increases expression7
Resveratrolaffects cotreatment, decreases expression, increases expression, increases reaction, increases activity (+2 more)5
Benzo(a)pyreneaffects methylation, decreases expression3
Estradiolaffects cotreatment, decreases expression, increases expression3
Progesteroneaffects cotreatment, decreases expression, increases expression3
Cyclosporineincreases expression3
triphenyl phosphateincreases expression, affects expression, decreases reaction2
bis(tri-n-butyltin)oxideincreases expression2
tributyltinincreases expression2
perfluorooctanoic acidincreases expression2
epigallocatechin gallatedecreases expression2
GW 3965decreases expression, decreases reaction, increases expression2
Alitretinoinincreases expression, affects cotreatment2
Air Pollutantsincreases abundance, increases expression2
Cadmiumincreases expression, increases response to substance, increases abundance2
Cisplatinaffects expression, decreases expression2
Curcuminincreases expression2
Nickeldecreases expression2
Rifampinincreases expression2
Silicon Dioxidedecreases expression2
Smokeincreases abundance, increases expression, decreases expression2
Tobacco Smoke Pollutiondecreases methylation, increases expression2
Tretinoinincreases expression2
Aflatoxin B1decreases methylation, decreases expression2
Cadmium Chlorideincreases abundance, increases expression2
GSK-J4increases expression1
lly-283increases expression1
1,2-linoleoylphosphatidylcholinedecreases expression1
22-hydroxycholesterolincreases expression1

Cellosaurus cell lines

3 cell lines: 3 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_1252HCC1428Cancer cell lineFemale
CVCL_C9DBHCC1428/Cas9-hygCancer cell lineFemale
CVCL_YX83HCC1428-LTEDCancer cell lineFemale

Clinical trials (associated diseases)

300 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT01112683PHASE4COMPLETEDEfficacy and Safety of Memantine Hydrochloride in Enhancing the Cognitive Abilities of Young Adults With Down Syndrome
NCT04219280PHASE4RECRUITINGEvaluating Treatment of ADHD in Children with Down Syndrome
NCT04747275PHASE4TERMINATEDUse of Liquid Stable Levothyroxine in Trisomy 21 Pediatric Patients
NCT05458479PHASE4COMPLETEDFluoxetine Treatment of Depression in Down Syndrome
NCT06911944PHASE4NOT_YET_RECRUITINGAmyloid Lowering for Alzheimer’s in Down’s With Donanemab Investigation
NCT07280468PHASE4RECRUITINGEndotype DIrected Treatment for OSA in Down Syndrome
NCT00056329PHASE3UNKNOWNVitamin E in Aging Persons With Down Syndrome
NCT00754013PHASE3TERMINATEDEvaluating The Efficacy And Safety Of Donepezil Hydrochloride (Aricept) In The Treatment Of The Cognitive Dysfunction Exhibited By Children With Down Syndrome, Aged 6 To 10
NCT00754052PHASE3TERMINATEDEvaluating The Efficacy And Safety Of Donepezil Hydrochloride (Aricept) In The Treatment Of The Cognitive Dysfunction Exhibited By Children With Down Syndrome, Aged 11 To 17
NCT01190930PHASE3COMPLETEDRisk-Adapted Chemotherapy in Treating Younger Patients With Newly Diagnosed Standard-Risk Acute Lymphoblastic Leukemia or Localized B-Lineage Lymphoblastic Lymphoma
NCT01576705PHASE3COMPLETEDEfficacy Assessment of Systematic Treatment With Folinic Acid and Thyroid Hormone on Psychomotor Development of Down Syndrome Young Children
NCT01594346PHASE3COMPLETEDMulticenter Vitamin E Trial in Aging Persons With Down Syndrome
NCT02521493PHASE3ACTIVE_NOT_RECRUITINGResponse-Based Chemotherapy in Treating Newly Diagnosed Acute Myeloid Leukemia or Myelodysplastic Syndrome in Younger Patients With Down Syndrome
NCT03914625PHASE3ACTIVE_NOT_RECRUITINGA Study to Investigate Blinatumomab in Combination With Chemotherapy in Patients With Newly Diagnosed B-Lymphoblastic Leukemia
NCT04801771PHASE3ACTIVE_NOT_RECRUITINGEffects of Hypoglossal Nerve Stimulation on Cognition and Language in Down Syndrome and Obstructive Sleep Apnea
NCT05528549PHASE3COMPLETEDBlood Flow and Blood Pressure Investigation in Down Syndrome
NCT06860373PHASE3TERMINATEDLIFE-DSR-Biomarker Sub-study of Biomarkers in Down Syndrome Related Alzheimer’s Disease (DS-AD)
NCT07135167PHASE3RECRUITINGCompassionate Use Study of Epi-ON Corneal Collagen Crosslinking Performed Using UVA Exposure on Eyes With Ectatic Corneal Diseases for Subjects With Down Syndrome
NCT07232134PHASE3RECRUITINGThe Efficacy of Therapy in Patients With Acute Myeloid Leukemia and Down Syndrome in Russia
NCT07234695PHASE3RECRUITINGLEvetiracetam to Prevent Seizures in Symptomatic Alzheimer’s Disease in Adults With Down Syndrome
NCT07238465PHASE3RECRUITINGExploring Sympathetic Nervous System Function in Individuals With Down Syndrome
NCT00570128PHASE2COMPLETEDEvaluating The Efficacy And Safety Of Donepezil Hydrochloride (HCl) (Aricept) In Treating Cognitive Dysfunction Exhibited By Children With Down Syndrome
NCT00675025PHASE2TERMINATEDEvaluating The Safety Of Donepezil Hydrochloride (Aricept) For Up To 1 Year In The Treatment Of The Cognitive Dysfunction Exhibited By Children With Down Syndrome - Follow-Up To A 10-Week, Double-Blind, Placebo-Controlled Trial
NCT00891917PHASE2WITHDRAWNLiq-NOL Efficacy in Pediatric Patients With Down Syndrome
NCT00928304PHASE2COMPLETEDPhase II Study of Florbetaben (BAY94-9172) PET Imaging for Detection/Exclusion of Cerebral β-amyloid.
NCT01394796PHASE2COMPLETEDEgcg, a dyrk1a Inhibitor as Therapeutic Tool for Reversing Cognitive Deficits in Down Syndrome Individuals.
NCT01699711PHASE2COMPLETEDNormalization of dyrk1A and APP Function as an Approach to Improve Cognitive Performance and Decelerate AD Progression in DS Subjects: Epigallocatechin Gallate as Therapeutic Tool
NCT01791725PHASE2COMPLETEDA 4-Week Safety Study of Oral ELND005 in Young Adults With Down Syndrome Without Dementia
NCT01975545PHASE2UNKNOWNFluor Varnish With Silver Nanoparticles for Dental Remineralization in Patients With Trisomy 21
NCT02024789PHASE2COMPLETEDA Study of RG1662 in Adults and Adolescents With Down Syndrome (CLEMATIS)
NCT02094053PHASE2COMPLETEDA Double-blind, Placebo-controlled Comparative Study and Open-label Extension Study to Confirm the Efficacy and Safety of E2020 in Subjects With Down Syndrome Having Regression Symptoms and Disabled Activities of Daily Living.
NCT02304302PHASE2COMPLETEDDown Syndrome Memantine Follow-up Study
NCT02484703PHASE2TERMINATEDA Study of RO5186582 in Down Syndrome Among Children 6 to 11 Years of Age
NCT02971254PHASE2COMPLETEDThe Effects of Inhalational Anaesthetics in Cognitive Functions in Down Syndrome Patients
NCT03286634PHASE2ACTIVE_NOT_RECRUITINGASIA Down Syndrome Acute Lymphoblastic Leukemia 2016
NCT03538925PHASE2COMPLETEDBuilding Sentences With Preschoolers Who Use AAC
NCT04115878PHASE2COMPLETEDMedications for Obstructive Sleep Apnea In Children With Down Syndrome
NCT04246372PHASE2COMPLETEDTofacitinib for Immune Skin Conditions in Down Syndrome
NCT04373616PHASE2WITHDRAWNA Study of ACI-24 in Adults With Down Syndrome
NCT04546399PHASE2RECRUITINGA Study to Compare Blinatumomab Alone to Blinatumomab With Nivolumab in Patients Diagnosed With First Relapse B-Cell Acute Lymphoblastic Leukemia (B-ALL)