ATP8B1

gene
On this page

Also known as ATPICPFIC

Summary

ATP8B1 (ATPase phospholipid transporting 8B1, HGNC:3706) is a protein-coding gene on chromosome 18q21.31, encoding Phospholipid-transporting ATPase IC (O43520). Catalytic component of a P4-ATPase flippase complex which catalyzes the hydrolysis of ATP coupled to the transport of phospholipids, in particular phosphatidylcholines (PC), from the outer to the inner leaflet of the plasma membrane.

This gene encodes a member of the P-type cation transport ATPase family, which belongs to the subfamily of aminophospholipid-transporting ATPases. The aminophospholipid translocases transport phosphatidylserine and phosphatidylethanolamine from one side of a bilayer to another. Mutations in this gene may result in progressive familial intrahepatic cholestasis type 1 and in benign recurrent intrahepatic cholestasis.

Source: NCBI Gene 5205 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): progressive familial intrahepatic cholestasis type 1 (Definitive, GenCC) — +2 more curated relationships
  • GWAS associations: 16
  • Clinical variants (ClinVar): 1,269 total — 88 pathogenic, 54 likely-pathogenic
  • Phenotypes (HPO): 57
  • MANE Select transcript: NM_001374385

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:3706
Approved symbolATP8B1
NameATPase phospholipid transporting 8B1
Location18q21.31
Locus typegene with protein product
StatusApproved
AliasesATPIC, PFIC
Ensembl geneENSG00000081923
Ensembl biotypeprotein_coding
OMIM602397
Entrez5205

Gene structure

Transcript identifiers

Ensembl transcripts: 24 — 18 protein_coding, 4 nonsense_mediated_decay, 1 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000585322, ENST00000588255, ENST00000589147, ENST00000591728, ENST00000642462, ENST00000648039, ENST00000648467, ENST00000648908, ENST00000857621, ENST00000857622, ENST00000857623, ENST00000857624, ENST00000857625, ENST00000857626, ENST00000857627, ENST00000857628, ENST00000857629, ENST00000938298, ENST00000967606, ENST00000967607, ENST00000967608, ENST00000967609, ENST00000967610, ENST00000967611

RefSeq mRNA: 3 — MANE Select: NM_001374385 NM_001374385, NM_001374386, NM_005603

CCDS: CCDS11965

Canonical transcript exons

ENST00000648908 — 28 exons

ExonStartEnd
ENSE000009502485769761857697688
ENSE000009502495769545057695532
ENSE000009502515769458257694670
ENSE000009502525769180757691997
ENSE000009502545768507257685115
ENSE000010115815768829957688507
ENSE000010115995769517157695329
ENSE000010116075768403657684192
ENSE000010116125767483457675022
ENSE000011598465765036757650497
ENSE000011598545765203457652172
ENSE000011598675765399257654075
ENSE000011598745765519457655417
ENSE000011598795766117457661462
ENSE000011786365766248357662615
ENSE000011786465766842957668540
ENSE000011786525766931857669482
ENSE000011786545767146857671580
ENSE000012211935765248457652729
ENSE000012212335766709257667167
ENSE000012213555764642657648712
ENSE000034606065770455557704668
ENSE000034970005770649057706587
ENSE000035081575770121557701313
ENSE000035279125769779557697867
ENSE000036671975770103957701100
ENSE000038209235773162757731832
ENSE000038390655780299857803315

Expression profiles

Bgee: expression breadth ubiquitous, 289 present calls, max score 99.58.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 7.8558 / max 179.4195, expressed in 1223 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter IDTPM avgSamples expressed
1721204.58471017
1721172.2776702
1721180.6507275
1721190.2818153
1721160.061025

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
cardia of stomachUBERON:000116299.58gold quality
nippleUBERON:000203099.56gold quality
renal medullaUBERON:000036299.50gold quality
pylorusUBERON:000116699.49gold quality
ventral tegmental areaUBERON:000269199.38gold quality
trigeminal ganglionUBERON:000167599.27gold quality
buccal mucosa cellCL:000233699.24gold quality
superior surface of tongueUBERON:000737199.21gold quality
superior vestibular nucleusUBERON:000722799.13gold quality
subthalamic nucleusUBERON:000190699.12gold quality
inferior vagus X ganglionUBERON:000536399.00gold quality
lateral globus pallidusUBERON:000247698.92gold quality
spermCL:000001998.90gold quality
mucosa of sigmoid colonUBERON:000499398.89gold quality
penisUBERON:000098998.83gold quality
substantia nigra pars reticulataUBERON:000196698.83gold quality
pericardiumUBERON:000240798.81gold quality
urethraUBERON:000005798.76gold quality
substantia nigra pars compactaUBERON:000196598.76gold quality
colonic mucosaUBERON:000031798.71gold quality
pharyngeal mucosaUBERON:000035598.69gold quality
medulla oblongataUBERON:000189698.69gold quality
vena cavaUBERON:000408798.67gold quality
synovial jointUBERON:000221798.61gold quality
saphenous veinUBERON:000731898.59gold quality
jejunal mucosaUBERON:000039998.38gold quality
lateral nuclear group of thalamusUBERON:000273698.31gold quality
male germ cellCL:000001598.21gold quality
body of tongueUBERON:001187698.14gold quality
ponsUBERON:000098898.02gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-GEOD-135922yes33.12
E-ANND-3yes14.06

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NR1H4

miRNA regulators (miRDB)

114 targeting ATP8B1, 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-126-5P100.0072.713180
HSA-MIR-188-3P100.0068.761240
HSA-MIR-340-5P100.0072.504437
HSA-MIR-8485100.0077.574731
HSA-MIR-5692A100.0074.406850
HSA-MIR-4262100.0073.263931
HSA-MIR-3163100.0077.238605
HSA-MIR-548AW99.9972.573559
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-33A-5P99.9968.621055
HSA-MIR-33B-5P99.9968.581062
HSA-MIR-4789-5P99.9870.762721
HSA-MIR-32-5P99.9875.211964
HSA-MIR-92A-3P99.9875.211960
HSA-MIR-92B-3P99.9875.251955
HSA-MIR-25-3P99.9874.601817
HSA-MIR-363-3P99.9874.721821
HSA-MIR-367-3P99.9874.831819
HSA-MIR-806899.9873.852376
HSA-MIR-477599.9875.006394
HSA-MIR-3688-3P99.9772.022834
HSA-MIR-314899.9775.066478
HSA-MIR-590-3P99.9674.346478
HSA-MIR-1468-3P99.9672.743797
HSA-MIR-302E99.9670.742669
HSA-MIR-651-3P99.9473.485177

Literature-anchored findings (GeneRIF, showing 40)

  • three homologues found and two sequenced and two RNA transcript sizes analysed by northern blot: APT8B2, APT8B3, APT8B4 (PMID:12880872)
  • Loss of familial intrahepatic cholestasis-1 leads to diminished nuclear translocation of farnesoid X receptor(FXR), with subsequent potential for pathologic alterations in intestinal and hepatic bile acid transporter expression (PMID:14988830)
  • 54 distinct disease mutations: 10 mutations predicted to disrupt splicing, 6 nonsense mutations, 11 small insertion or deletion mutations predicted to induce frameshifts, 1 large genomic deletion, 2 small inframe deletions, and 24 missense mutations. (PMID:15239083)
  • Loss of familial intrahepatic cholestasis-1 leads to diminished nuclear translocation of farnesoid X receptor(FXR), with subsequent potential for pathologic alterations in intestinal and hepatic bile acid transporter expression (PMID:15946126)
  • Coexpression with CDC50 proteins resulted in relocalization of ATP8B1 from the endoplasmic reticulum to the plasma membrane. In the plasma membrane, ATP8B1 functions as a flippase for phosphatidylserine. (PMID:17948906)
  • FIC1 signals to FXR via PKC zeta. FIC1-related liver disease is likely related to downstream effects of FXR on bile acid homeostasis. (PMID:18668687)
  • ATP8B1 deficiency predisposes to cholestasis by favoring bile acid-induced injury in the canalicular membrane but does not directly affect FXR expression (PMID:19027009)
  • Knockdown of ATP8B1 expression leads to specific downregulation of the bile acid sensor FXR in HepG2 cells: effect of the FXR agonist GW4064. (PMID:19228886)
  • These results suggest that the PFIC1 mutants have a lower stimulatory effect on FXR activity and cannot interact with CDC50A, which may lead to the development of the features of PFIC1. (PMID:19381753)
  • show that ATP8B1/Atp8b1 deficiency, both in patients and in Atp8b1(G308V/G308V) mutant mice, causes hearing loss, associated with progressive degeneration of cochlear hair cells (PMID:19478059)
  • Post-liver transplantation steatosis may be due to a malfunction of the ATP8B1 product. (PMID:19479804)
  • PFIC1 mutations lead to the complete absence of canalicular expression, whereas in BRIC1/ICP residual protein is expressed in the canalicular membrane. (PMID:19731236)
  • Findings support the hypothesis that hepatocyte FIC1 enhances FXR signaling via a PKCzeta-dependent signaling pathway. (PMID:19809379)
  • A surprisingly large proportion of ATP8B1 mutations resulted in aberrant folding and decreased expression at the plasma membrane. These effects were partially restored by treatment with 4-phenylbutyrate. (PMID:19918981)
  • ATP8B1 gene mutations play an important role in Chinese patients with progressive intrahepatic cholestasis and low gamma-glutamyltransferase. The linked mutation P209T and IVS6+5G>T is a hot mutation in the Chinese population. (PMID:20038848)
  • We now report evidence that heterozygous genetically determined alteration of ATP8B1 (encoding FIC1) may also represent a risk factor for transient neonatal cholestasis. (PMID:20216097)
  • Progressive familial intrahepatic cholestasis types 1 & 2 differ clinically, biochemically, and histologically at presentation and/or during the disease course. A small proportion of normal-GGT PFIC is likely not due to ATP8B1 or ABCB11 mutations. (PMID:20232290)
  • Data identified three novel mutations in BSEP, one novel mutation in MDR3, and one heterozygous mutation in ATP8B1 in PFIC patients. (PMID:20414253)
  • facilitating diagnosis and elucidating the differing consequences of ATP8B1 and ABCB11 mutations in progressive familial intrahepatic cholestasis (PMID:20447715)
  • critical role in apical membrane organization that is unrelated to its presumed aminophospholipid translocase activity (PMID:20512993)
  • Sequence analysis of the genes identified 27% cholestasis subjects with missense, nonsense, deletion, and splice site variants associated with disease phenotypes based on the type of mutation in the JAG1, ATP8B1, ABCB11, or ABCB4 genes. (PMID:20683201)
  • results unveil a new paradigm whereby Atp8b1 is a cardiolipin importer whose capacity to remove cardiolipin from lung fluid is exceeded during inflammation or when Atp8b1 is defective (PMID:20852622)
  • Novel splice-site mutation in ATP8B1 results in atypical progressive familial intrahepatic cholestasis type 1. (PMID:23033845)
  • Biochemical analysis of P4-ATPase mutations identified in patients with progressive familial intrahepatic cholestasis (PMID:23060447)
  • Case Report: missense ATP8B1 mutation in adult male with progressive familial intrahepatic cholestasis type 1. (PMID:23197899)
  • FIC1 signals to FXR via a signaling pathway including PLD2 and PKCzeta (PMID:23213138)
  • The basal expression of ATP8B1 is driven by a housekeeping-like promoter located 71 kb upstream of the first protein coding exon, and is independent of bile acids and farnesoid X receptor. (PMID:23251605)
  • Case Report: suggest contribution of ATP8B1 mutations to drug-induced liver injury from anabolic androgenic steroids marketed as dietary supplements. (PMID:23750872)
  • We did not find an association between heterozygous ATP8B1 variants and chronic pancreatitis in our cohort of patients with hereditary and idiopathic chronic pancreatitis. (PMID:24260417)
  • Data indicate that the lipid flippase (ATP8B1)-transmembrane protein 30A (CDC50A) heterodimer is essential for the apical localization of sodium-dependent bile acid transporter (SLC10A2/ASBT) in Caco-2 cells. (PMID:25239307)
  • We systematically characterized the molecular consequences of 14 ATP8B1 mutations at exon-intron boundaries associated with ATP8B1 deficiency and found that the majority resulted in total exon skipping (PMID:25421123)
  • insufficient activity of Atp8b1/FIC1 increases susceptibility to bacterial pneumonia. (PMID:26050466)
  • the predominant P4 ATPases in pure pancreatic beta cells and human and rat pancreatic islets were ATP8B1, ATP8B2, and ATP9A. ATP8B1 and CDC50A were highly concentrated in ISG (PMID:26240149)
  • As hypothyroidism can be another extrahepatic feature of ATP8B1 deficiency, thyroid function should be monitored in these patients. (PMID:26382629)
  • GGT levels in patients with ATP8B1 or ABCB11 deficiency varied with age. The peak GGT value was <70U/L in the 2nd6th month of life, <60U/L in the 7th12th month and <50U/L beyond one year (PMID:27050426)
  • ATP8B1 is important for proper CFTR expression and function. (PMID:27301931)
  • The lipid flippases, ATP8B1 and ATP11A are novel elements of the innate immune response that are essential to attenuate the inflammatory response, possibly by mediating endotoxin-induced internalization of TLR4. (PMID:27628304)
  • Patients with a confirmed ABCB11 or tight junction protein 2 gene mutation (n = 7) had a minimally detectable THBA proportion (0.23-2.99% of total BAs). Three patients with an ATP8B1 mutation had an elevated THBA proportion (7.51-37.26%). (PMID:28073941)
  • the first characterisation at the protein level of six ABCB4 variants (D243A, K435T, G535D, I490T, R545C, and S978P) previously found in patients with inflammatory liver diseases or liver cancer, is reported. (PMID:28220208)
  • FIC1, BSEP, and MDR3 represent hepatobiliary transport proteins essential for bile formation. (PMID:28733223)

Cross-species orthologs

8 orthologs

OrganismSymbolGene ID
danio_rerioatp8b1ENSDARG00000060980
mus_musculusAtp8b1ENSMUSG00000039529
rattus_norvegicusAtp8b1ENSRNOG00000024952
drosophila_melanogasterCG9981FBGN0030746
drosophila_melanogasterCG4301FBGN0030747
drosophila_melanogasterCG31729FBGN0051729
caenorhabditis_eleganstat-5WBGENE00009498
caenorhabditis_elegansWBGENE00017174

Paralogs (13): ATP9A (ENSG00000054793), ATP11B (ENSG00000058063), ATP11A (ENSG00000068650), ATP11C (ENSG00000101974), ATP8B4 (ENSG00000104043), ATP10B (ENSG00000118322), ATP8A1 (ENSG00000124406), ATP8B3 (ENSG00000130270), ATP8A2 (ENSG00000132932), ATP8B2 (ENSG00000143515), ATP10D (ENSG00000145246), ATP9B (ENSG00000166377), ATP10A (ENSG00000206190)

Protein

Protein identifiers

Phospholipid-transporting ATPase ICO43520 (reviewed: O43520)

Alternative names: ATPase class I type 8B member 1, Familial intrahepatic cholestasis type 1, P4-ATPase flippase complex alpha subunit ATP8B1

All UniProt accessions (5): O43520, A0A2R8Y5C5, A0A3B3IRQ1, K7EQC4, K7ESK2

UniProt curated annotations — full annotation on UniProt →

Function. Catalytic component of a P4-ATPase flippase complex which catalyzes the hydrolysis of ATP coupled to the transport of phospholipids, in particular phosphatidylcholines (PC), from the outer to the inner leaflet of the plasma membrane. May participate in the establishment of the canalicular membrane integrity by ensuring asymmetric distribution of phospholipids in the canicular membrane. Thus may have a role in the regulation of bile acids transport into the canaliculus, uptake of bile acids from intestinal contents into intestinal mucosa or both and protect hepatocytes from bile salts. Involved in the microvillus formation in polarized epithelial cells; the function seems to be independent from its flippase activity. Participates in correct apical membrane localization of CDC42, CFTR and SLC10A2. Enables CDC42 clustering at the apical membrane during enterocyte polarization through the interaction between CDC42 polybasic region and negatively charged membrane lipids provided by ATP8B1. Together with TMEM30A is involved in uptake of the synthetic drug alkylphospholipid perifosine. Required for the preservation of cochlear hair cells in the inner ear. May act as cardiolipin transporter during inflammatory injury.

Subunit / interactions. Component of a P4-ATPase flippase complex which consists of a catalytic alpha subunit ATP8B1 and an accessory beta subunit TMEM30A. The flippase ATP8B1:TMEM30A complex can form an intermediate phosphoenzyme in vitro. Also interacts with beta subunit TMEM30B.

Subcellular location. Cell membrane. Apical cell membrane. Cell projection. Stereocilium. Endoplasmic reticulum. Golgi apparatus.

Tissue specificity. Found in most tissues except brain and skeletal muscle. Most abundant in pancreas and small intestine.

Disease relevance. Cholestasis, progressive familial intrahepatic, 1 (PFIC1) [MIM:211600] A disorder characterized by early onset of cholestasis that progresses to hepatic fibrosis, cirrhosis, and end-stage liver disease before adulthood. PFIC1 inheritance is autosomal recessive. The disease is caused by variants affecting the gene represented in this entry. Cholestasis, benign recurrent intrahepatic, 1 (BRIC1) [MIM:243300] A disorder characterized by intermittent episodes of cholestasis without progression to liver failure. There is initial elevation of serum bile acids, followed by cholestatic jaundice which generally spontaneously resolves after periods of weeks to months. The cholestatic attacks vary in severity and duration. Patients are asymptomatic between episodes, both clinically and biochemically. The disease is caused by variants affecting the gene represented in this entry. Cholestasis of pregnancy, intrahepatic 1 (ICP1) [MIM:147480] A liver disorder of pregnancy. It presents during the second or, more commonly, the third trimester of pregnancy with intense pruritus which becomes more severe with advancing gestation and cholestasis. Cholestasis results from abnormal biliary transport from the liver into the small intestine. ICP1 causes fetal distress, spontaneous premature delivery and intrauterine death. ICP1 patients have spontaneous and progressive disappearance of cholestasis after delivery. The disease may be caused by variants affecting the gene represented in this entry.

Similarity. Belongs to the cation transport ATPase (P-type) (TC 3.A.3) family. Type IV subfamily.

RefSeq proteins (3): NP_001361314, NP_001361315, NP_005594 (=MANE)

Domains & families (InterPro)

IDNameType
IPR001757P_typ_ATPaseFamily
IPR006539P-type_ATPase_IVFamily
IPR008250ATPase_P-typ_transduc_dom_A_sfHomologous_superfamily
IPR018303ATPase_P-typ_P_sitePTM
IPR023214HAD_sfHomologous_superfamily
IPR023298ATPase_P-typ_TM_dom_sfHomologous_superfamily
IPR023299ATPase_P-typ_cyto_dom_NHomologous_superfamily
IPR032630P_typ_ATPase_cDomain
IPR032631P-type_ATPase_NDomain
IPR036412HAD-like_sfHomologous_superfamily
IPR044492P_typ_ATPase_HD_domDomain
IPR059000ATPase_P-type_domADomain

Pfam: PF00122, PF13246, PF16209, PF16212

Enzyme classification (BRENDA):

  • EC 7.6.2.1 — P-type phospholipid transporter (BRENDA: 22 organisms, 260 substrates, 62 inhibitors, 53 Km, 0 kcat entries)

Substrate kinetics (BRENDA)

4 substrates with measured Km, best-characterized 4. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
ATP0.016–2.21541
P-NITROPHENYL PHOSPHATE1.17–1.463
ACETYL PHOSPHATE1.03–1.312
1-PALMITOYL-2-OLEOYL-SN-GLYCERO-3-PHOSPHO-L-SERI0.1111

Catalyzed reactions (Rhea), 2 shown:

  • a 1,2-diacyl-sn-glycero-3-phospho-L-serine(out) + ATP + H2O = a 1,2-diacyl-sn-glycero-3-phospho-L-serine(in) + ADP + phosphate + H(+) (RHEA:38567)
  • a 1,2-diacyl-sn-glycero-3-phosphocholine(out) + ATP + H2O = a 1,2-diacyl-sn-glycero-3-phosphocholine(in) + ADP + phosphate + H(+) (RHEA:38583)

UniProt features (211 total): helix 54, strand 48, sequence variant 45, binding site 18, turn 16, topological domain 11, transmembrane region 10, compositionally biased region 2, mutagenesis site 2, chain 1, region of interest 1, active site 1, modified residue 1, sequence conflict 1

Structure

Experimental structures (PDB)

13 structures.

PDBMethodResolution (Å)
8OX6ELECTRON MICROSCOPY2.39
8OX7ELECTRON MICROSCOPY2.56
8OXCELECTRON MICROSCOPY2.58
8OX9ELECTRON MICROSCOPY2.72
8OXAELECTRON MICROSCOPY2.76
8OX5ELECTRON MICROSCOPY2.9
8OX8ELECTRON MICROSCOPY2.98
8OXBELECTRON MICROSCOPY2.99
7PY4ELECTRON MICROSCOPY3.1
7VGIELECTRON MICROSCOPY3.36
7VGHELECTRON MICROSCOPY3.39
8OX4ELECTRON MICROSCOPY3.4
7VGJELECTRON MICROSCOPY3.98

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O43520-F180.420.36

Functional residue map

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

Catalytic / active sites (1): 454 (4-aspartylphosphate intermediate)

Ligand- & substrate-binding residues (18): 454; 454; 455; 456; 456; 555; 596; 619; 652; 732; 733; 734

Post-translational modifications (1): 1223

Mutagenesis-validated functional residues (2):

PositionPhenotype
234impaired pc flippase activity.
454greatly reduced expression due to proteosomal degradation; abolishes interaction with tmem30a.

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-936837Ion transport by P-type ATPases
R-HSA-382551Transport of small molecules
R-HSA-983712Ion channel transport

MSigDB gene sets: 353 (showing top): GOBP_APICAL_PROTEIN_LOCALIZATION, MORF_FLT1, MORF_MSH3, DACOSTA_UV_RESPONSE_VIA_ERCC3_XPCS_DN, GOBP_SENSORY_PERCEPTION_OF_MECHANICAL_STIMULUS, MORF_BRCA1, GOBP_PLASMA_MEMBRANE_ORGANIZATION, GOBP_INORGANIC_ANION_TRANSPORT, GOBP_NEUROGENESIS, GOBP_CRANIAL_NERVE_MORPHOGENESIS, GOBP_XENOBIOTIC_TRANSMEMBRANE_TRANSPORT, GOBP_MONOCARBOXYLIC_ACID_METABOLIC_PROCESS, GOBP_REGULATION_OF_CELLULAR_COMPONENT_BIOGENESIS, GGGTGGRR_PAX4_03, GOBP_CRANIAL_NERVE_DEVELOPMENT

GO Biological Process (20): xenobiotic transmembrane transport (GO:0006855), Golgi organization (GO:0007030), sensory perception of sound (GO:0007605), bile acid metabolic process (GO:0008206), bile acid and bile salt transport (GO:0015721), vestibulocochlear nerve formation (GO:0021650), regulation of microvillus assembly (GO:0032534), monoatomic ion transmembrane transport (GO:0034220), apical protein localization (GO:0045176), phospholipid translocation (GO:0045332), negative regulation of DNA-templated transcription (GO:0045892), inner ear receptor cell development (GO:0060119), regulation of plasma membrane organization (GO:1903729), regulation of chloride transport (GO:2001225), lipid transport (GO:0006869), obsolete organic anion transport (GO:0015711), phospholipid transport (GO:0015914), aminophospholipid transport (GO:0015917), lipid translocation (GO:0034204), aminophospholipid translocation (GO:0140331)

GO Molecular Function (17): magnesium ion binding (GO:0000287), ATP binding (GO:0005524), ATP hydrolysis activity (GO:0016887), phosphatidylcholine floppase activity (GO:0090554), phosphatidylserine floppase activity (GO:0090556), ATPase-coupled intramembrane lipid carrier activity (GO:0140326), phosphatidylcholine flippase activity (GO:0140345), phosphatidylserine flippase activity (GO:0140346), cardiolipin binding (GO:1901612), nucleotide binding (GO:0000166), transporter activity (GO:0005215), lipid carrier activity (GO:0005319), protein binding (GO:0005515), obsolete phospholipid transporter activity (GO:0005548), aminophospholipid flippase activity (GO:0015247), metal ion binding (GO:0046872), flippase activity (GO:0140327)

GO Cellular Component (13): nucleoplasm (GO:0005654), endoplasmic reticulum (GO:0005783), Golgi apparatus (GO:0005794), trans-Golgi network (GO:0005802), cytosol (GO:0005829), plasma membrane (GO:0005886), apical plasma membrane (GO:0016324), nuclear body (GO:0016604), stereocilium (GO:0032420), phospholipid-translocating ATPase complex (GO:1990531), endomembrane system (GO:0012505), membrane (GO:0016020), cell projection (GO:0042995)

Reactome top-level categories

Rollup of top-2 pathways:

CategoryPathways
Ion channel transport1
Transport of small molecules1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure5
lipid transport3
cytoplasm3
transmembrane transport2
phospholipid transport2
ATP-dependent activity2
phosphatidylcholine intramembrane carrier activity2
floppase activity2
glycerophospholipid flippase activity2
endomembrane system2
intracellular membrane-bounded organelle2
xenobiotic transport1
organelle organization1
endomembrane system organization1
sensory perception of mechanical stimulus1
steroid metabolic process1
monocarboxylic acid metabolic process1
monocarboxylic acid transport1
organic hydroxy compound transport1
cranial nerve formation1
vestibulocochlear nerve morphogenesis1
microvillus assembly1
regulation of microvillus organization1
regulation of plasma membrane bounded cell projection assembly1
monoatomic ion transport1
intracellular protein localization1
lipid translocation1
DNA-templated transcription1
regulation of DNA-templated transcription1
negative regulation of RNA biosynthetic process1
neuron development1
inner ear receptor cell differentiation1
plasma membrane organization1
regulation of cellular component organization1
chloride transport1
regulation of monoatomic anion transport1
transport1
lipid localization1
organophosphate ester transport1
nitrogen compound transport1

Protein interactions and networks

STRING

1270 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ATP8B1ABCB11O95342990
ATP8B1ABCB4P21439924
ATP8B1CDC50AQ9NV96859
ATP8B1NR1H4Q96RI1846
ATP8B1NR0B2Q15466795
ATP8B1CDC50BQ3MIR4768
ATP8B1ABCC2Q92887744
ATP8B1AKR1D1P51857648
ATP8B1TJP2Q9UDY2638
ATP8B1BAATQ14032591
ATP8B1SLC10A2Q12908589
ATP8B1FABP6P51161585
ATP8B1ABCG5Q9H222584
ATP8B1SLC10A1Q14973576
ATP8B1MYO5BQ9ULV0576

IntAct

17 interactions, top by confidence:

ABTypeScore
ATP8B1TMEM30Apsi-mi:“MI:0915”(physical association)0.880
ATP8B1TMEM30Apsi-mi:“MI:0403”(colocalization)0.880
TMEM30AATP8B1psi-mi:“MI:0915”(physical association)0.880
TMEM30BATP8B1psi-mi:“MI:0915”(physical association)0.740
ATP8B1TMEM30Bpsi-mi:“MI:0915”(physical association)0.740
ATP8B1TMEM30Bpsi-mi:“MI:0403”(colocalization)0.740
TMEM30BATP8B1psi-mi:“MI:0403”(colocalization)0.740
ATP8B1NUP153psi-mi:“MI:0407”(direct interaction)0.440
SHTN1psi-mi:“MI:0914”(association)0.350

BioGRID (9): ATP8B1 (Affinity Capture-RNA), ATP8B1 (Affinity Capture-RNA), ATP8B1 (Synthetic Lethality), ATP8B1 (Affinity Capture-MS), ATP8B1 (Affinity Capture-RNA), CKAP4 (Cross-Linking-MS (XL-MS)), ATP8B1 (Affinity Capture-RNA), TMEM30A (Affinity Capture-Western), TMEM30B (Affinity Capture-Western)

ESM2 similar proteins: A1A4J6, D4ABB8, F1Q4S1, G5EBH1, O14072, O43520, O43861, O70228, O75110, P09626, P19156, P20648, P27112, P40527, P50996, P57792, P90747, P98195, P98196, P98197, P98198, P98199, Q10309, Q27533, Q3TYU2, Q4VNC1, Q4WYP6, Q5XF89, Q5XF90, Q5ZKB7, Q64436, Q6DFW5, Q8NB49, Q92126, Q93084, Q95JN5, Q9EPE9, Q9H7F0, Q9HD20, Q9LI83

Diamond homologs: A1A4J6, A3FIN4, B1AWN4, C7EXK4, D4AA47, D4ABB8, F1Q4S1, G0S196, G2X7W6, G5EBH1, O36028, O43520, O43861, O54827, O60312, O60423, O94296, O94823, P32660, P39524, P40527, P57792, P70704, P98195, P98196, P98197, P98198, P98199, P98200, P98204, P98205, Q09891, Q10309, Q12675, Q148W0, Q29449, Q37145, Q5BL50, Q6DFW5, Q6UQ17

SIGNOR signaling

1 interactions.

AEffectBMechanism
ATP8B1up-regulatesATP2B2

Disease & clinical

Clinical variants and AI predictions

ClinVar

1269 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic88
Likely pathogenic54
Uncertain significance366
Likely benign493
Benign128

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1195884NM_001374385.1(ATP8B1):c.-25-4014_181+2209delPathogenic
1195885NC_000018.9:g.55335906_55346620dupPathogenic
126382NM_001374385.1(ATP8B1):c.1993G>T (p.Glu665Ter)Pathogenic
1301678NM_001374385.1(ATP8B1):c.3040C>T (p.Arg1014Ter)Pathogenic
1687217NM_001374385.1(ATP8B1):c.213dup (p.Lys72fs)Pathogenic
1698723NM_001374385.1(ATP8B1):c.2821C>T (p.Arg941Ter)Pathogenic
1698811NM_001374385.1(ATP8B1):c.1573C>T (p.Arg525Ter)Pathogenic
2425385NC_000018.9:g.(?55328386)(55328714_?)delPathogenic
2627551NM_001374385.1(ATP8B1):c.2500_2588del (p.Met834fs)Pathogenic
2679853NM_001374385.1(ATP8B1):c.1214_1215del (p.Tyr405fs)Pathogenic
2679854NM_001374385.1(ATP8B1):c.811A>T (p.Arg271Ter)Pathogenic
2687798NM_001374385.1(ATP8B1):c.555-1G>CPathogenic
2687832NM_001374385.1(ATP8B1):c.2614dup (p.Gln872fs)Pathogenic
2699206NM_001374385.1(ATP8B1):c.3082_3091del (p.Phe1028fs)Pathogenic
2706283NM_001374385.1(ATP8B1):c.2680_2681insTTATATAGATGAACGTG (p.Gly894delinsValIleTer)Pathogenic
2713995NM_001374385.1(ATP8B1):c.1172del (p.Gly391fs)Pathogenic
2725205NM_001374385.1(ATP8B1):c.1105dup (p.Ser369fs)Pathogenic
2728500NM_001374385.1(ATP8B1):c.3473_3476dup (p.Val1160fs)Pathogenic
2736742NM_001374385.1(ATP8B1):c.3069_3070del (p.Asp1025fs)Pathogenic
2736744NM_001374385.1(ATP8B1):c.2788C>T (p.Arg930Ter)Pathogenic
2736746NM_001374385.1(ATP8B1):c.1607_1608del (p.Thr536fs)Pathogenic
2744846NM_001374385.1(ATP8B1):c.426C>A (p.Tyr142Ter)Pathogenic
2749908NM_001374385.1(ATP8B1):c.2946_2947insGCTTGTATGTTTTTATCTTTATCTTTGGTTATTTTTTCATGTTGACATTAAGAGTAGCG (p.Trp983delinsAlaCysMetPheLeuSerLeuSerLeuValIlePheSerCysTer)Pathogenic
2767042NM_001374385.1(ATP8B1):c.1381C>T (p.Gln461Ter)Pathogenic
2770196NM_001374385.1(ATP8B1):c.3247del (p.Thr1083fs)Pathogenic
2780781NM_001374385.1(ATP8B1):c.3438G>A (p.Trp1146Ter)Pathogenic
2801695NM_001374385.1(ATP8B1):c.2947_2948insTGCTTGTATGTTTTTATCTTTATCTTTGGTTATTTTTTCATGTTGACATTAAGAGTAGCGT (p.Trp983fs)Pathogenic
2830014NM_001374385.1(ATP8B1):c.2131C>T (p.Gln711Ter)Pathogenic
2833127NM_001374385.1(ATP8B1):c.3113T>A (p.Leu1038Ter)Pathogenic
2836172NM_001374385.1(ATP8B1):c.1402A>T (p.Lys468Ter)Pathogenic

SpliceAI

4105 predictions. Top by Δscore:

VariantEffectΔscore
18:57648708:TGGAT:Tacceptor_gain1.0000
18:57648709:GGAT:Gacceptor_gain1.0000
18:57648710:GAT:Gacceptor_gain1.0000
18:57648711:AT:Aacceptor_gain1.0000
18:57648713:C:CCacceptor_gain1.0000
18:57652185:C:CTacceptor_gain1.0000
18:57653987:CCTA:Cdonor_loss1.0000
18:57653988:CTAC:Cdonor_loss1.0000
18:57653990:A:AGdonor_loss1.0000
18:57653991:C:Adonor_loss1.0000
18:57654071:GCAGT:Gacceptor_gain1.0000
18:57654072:CAGT:Cacceptor_gain1.0000
18:57654072:CAGTC:Cacceptor_gain1.0000
18:57654073:AGT:Aacceptor_gain1.0000
18:57654074:GT:Gacceptor_gain1.0000
18:57654075:TC:Tacceptor_loss1.0000
18:57654076:C:CCacceptor_gain1.0000
18:57654076:CT:Cacceptor_loss1.0000
18:57654077:T:Gacceptor_loss1.0000
18:57655189:ATTAC:Adonor_loss1.0000
18:57655190:TTA:Tdonor_loss1.0000
18:57655191:TAC:Tdonor_loss1.0000
18:57655193:C:Gdonor_loss1.0000
18:57655286:T:TAdonor_gain1.0000
18:57655413:GGCAG:Gacceptor_gain1.0000
18:57655414:GCAG:Gacceptor_gain1.0000
18:57655415:CAG:Cacceptor_gain1.0000
18:57655415:CAGC:Cacceptor_gain1.0000
18:57655416:AG:Aacceptor_gain1.0000
18:57655417:GCTAT:Gacceptor_loss1.0000

AlphaMissense

8306 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
18:57655414:G:TA904D1.000
18:57661190:G:CD897E1.000
18:57661190:G:TD897E1.000
18:57661191:T:AD897V1.000
18:57661191:T:CD897G1.000
18:57661191:T:GD897A1.000
18:57661192:C:AD897Y1.000
18:57661192:C:GD897H1.000
18:57661193:A:CN896K1.000
18:57661193:A:TN896K1.000
18:57661200:C:TG894E1.000
18:57661201:C:AG894W1.000
18:57661201:C:GG894R1.000
18:57661201:C:TG894R1.000
18:57661203:T:AD893V1.000
18:57661203:T:GD893A1.000
18:57661206:C:AG892V1.000
18:57661206:C:TG892E1.000
18:57661207:C:GG892R1.000
18:57661207:C:TG892R1.000
18:57661215:A:GL889P1.000
18:57661262:C:AK873N1.000
18:57661262:C:GK873N1.000
18:57661264:T:GK873Q1.000
18:57661281:C:GR867P1.000
18:57661283:G:CC866W1.000
18:57661288:A:GC865R1.000
18:57667149:C:TG743E1.000
18:57667161:G:TA739D1.000
18:57667162:C:GA739P1.000

dbSNP variants (sampled 300 via entrez): RS1000024405 (18:57656446 C>T), RS1000034562 (18:57771674 A>G), RS1000049581 (18:57739765 A>G), RS1000051511 (18:57736921 T>C), RS1000054306 (18:57779615 T>C), RS1000102840 (18:57734898 C>A), RS1000106726 (18:57681782 C>T), RS1000115500 (18:57783938 A>G), RS1000142994 (18:57737240 C>A,T), RS1000230329 (18:57746298 T>C), RS1000230700 (18:57760998 A>C), RS1000245772 (18:57712038 C>A,T), RS1000276375 (18:57730928 T>A), RS1000299352 (18:57706825 T>C,G), RS1000317405 (18:57659875 T>G)

Disease associations

OMIM: gene MIM:602397 | disease phenotypes: MIM:243300, MIM:211600, MIM:147480, MIM:601847

GenCC curated gene-disease

DiseaseClassificationInheritance
progressive familial intrahepatic cholestasis type 1DefinitiveAutosomal recessive
cholestasis, intrahepatic, of pregnancy, 1StrongAutosomal dominant
progressive familial intrahepatic cholestasisStrongAutosomal recessive

Mondo (6): benign recurrent intrahepatic cholestasis type 1 (MONDO:0009469), progressive familial intrahepatic cholestasis type 1 (MONDO:0008892), familial intrahepatic cholestasis (MONDO:0017290), cholestasis, intrahepatic, of pregnancy, 1 (MONDO:0007829), progressive familial intrahepatic cholestasis (MONDO:0015762), progressive familial intrahepatic cholestasis type 2 (MONDO:0011156)

Orphanet (7): Benign recurrent intrahepatic cholestasis (Orphanet:65682), Benign recurrent intrahepatic cholestasis type 1 (Orphanet:99960), Progressive familial intrahepatic cholestasis type 1 (Orphanet:79306), Familial intrahepatic cholestasis (Orphanet:284385), Intrahepatic cholestasis of pregnancy (Orphanet:69665), Progressive familial intrahepatic cholestasis (Orphanet:172), Progressive familial intrahepatic cholestasis type 2 (Orphanet:79304)

HPO phenotypes

57 total (30 of 57 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000007Autosomal recessive inheritance
HP:0000365Hearing impairment
HP:0000421Epistaxis
HP:0000716Depression
HP:0000821Hypothyroidism
HP:0000938Osteopenia
HP:0000952Jaundice
HP:0000988Skin rash
HP:0000989Pruritus
HP:0001046Intermittent jaundice
HP:0001081Cholelithiasis
HP:0001082Cholecystitis
HP:0001337Tremor
HP:0001394Cirrhosis
HP:0001406Intrahepatic cholestasis
HP:0001408Bile duct proliferation
HP:0001508Failure to thrive
HP:0001518Small for gestational age
HP:0001541Ascites
HP:0001622Premature birth
HP:0001732Abnormality of the pancreas
HP:0001733Pancreatitis
HP:0001744Splenomegaly
HP:0002014Diarrhea
HP:0002024Malabsorption
HP:0002027Abdominal pain
HP:0002240Hepatomegaly
HP:0002630Fat malabsorption
HP:0002643Neonatal respiratory distress

GWAS associations

16 associations (top):

StudyTraitp-value
GCST000253_3Attention deficit hyperactivity disorder and conduct disorder6.000000e-06
GCST000520_3Vitiligo3.000000e-06
GCST001277_5Liver enzyme levels (gamma-glutamyl transferase)9.000000e-10
GCST002690_14Very long-chain saturated fatty acid levels (fatty acid 20:0)4.000000e-06
GCST002932_7Manganese levels6.000000e-06
GCST007209_20Gallstone disease1.000000e-08
GCST008362_65Birth weight9.000000e-09
GCST010083_16Hemoglobin levels4.000000e-14
GCST011974_11Lung cancer4.000000e-06
GCST90002383_90Hematocrit2.000000e-13
GCST90002384_438Hemoglobin1.000000e-12
GCST90002403_338Red blood cell count5.000000e-14
GCST90013405_140Liver enzyme levels (alanine transaminase)1.000000e-30
GCST90013407_17Liver enzyme levels (gamma-glutamyl transferase)6.000000e-42
GCST90013663_87Alanine aminotransferase levels6.000000e-28
GCST90013664_51Aspartate aminotransferase levels5.000000e-11

EFO canonical traits (7, from GWAS)

EFO IDTrait name
EFO:0004532serum gamma-glutamyl transferase measurement
EFO:0006796very long-chain saturated fatty acid measurement
EFO:0004344birth weight
EFO:0004509hemoglobin measurement
EFO:0004348hematocrit
EFO:0004305erythrocyte count
EFO:0004736aspartate aminotransferase measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

GtoPdb / IUPHAR curated pharmacology

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

Target class: transporter — P4 P-type ATPases: Phospholipid-transporting ATPases

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, increases expression, affects expression6
Estradiolincreases expression, affects expression, affects cotreatment, decreases expression5
trichostatin Aincreases expression, affects cotreatment4
Air Pollutantsincreases abundance, decreases expression3
Benzo(a)pyrenedecreases expression, increases methylation3
Tobacco Smoke Pollutionaffects expression, decreases expression, increases expression3
bisphenol Adecreases expression, decreases methylation2
mercuric bromideincreases expression, affects cotreatment2
entinostatincreases expression, affects cotreatment2
belinostatincreases expression, affects cotreatment2
Panobinostataffects cotreatment, increases expression2
Acetaminophendecreases expression, affects cotreatment2
Phenylmercuric Acetateaffects cotreatment, increases expression2
Progesteronedecreases expression, affects cotreatment2
Cyclosporinedecreases expression, affects cotreatment2
p-Chloromercuribenzoic Acidaffects cotreatment, increases expression2
Particulate Matterdecreases expression, increases abundance2
testosterone enanthateaffects expression1
methylmercuric chlorideincreases expression1
beta-lapachonedecreases expression1
enilconazoleincreases expression1
cobaltous chloridedecreases expression1
manganese chlorideincreases abundance, increases expression1
potassium chromate(VI)affects cotreatment, decreases expression1
1-nitropyreneincreases expression1
triadimefondecreases expression1
S-(1,2-dichlorovinyl)cysteineaffects response to substance, increases expression, affects cotreatment, decreases expression1
epigallocatechin gallateaffects cotreatment, decreases expression1
gadodiamideincreases expression1
di-n-butylphosphoric acidaffects expression1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT03353454PHASE3WITHDRAWNA Placebo-controlled Study of Maralixibat (SHP625) in Pediatric Subjects With Progressive Familial Intrahepatic Cholestasis (PFIC)
NCT03566238PHASE3COMPLETEDThis Study Will Investigate the Efficacy and Safety of A4250 in Children With PFIC Types 1 or 2
NCT03659916PHASE3COMPLETEDLong Term Safety & Efficacy Study Evaluating The Effect of A4250 in Children With PFIC
NCT03905330PHASE3COMPLETEDA Study to Evaluate the Efficacy and Safety of Maralixibat in Subjects With Progressive Familial Intrahepatic Cholestasis (MARCH-PFIC)
NCT04185363PHASE3COMPLETEDAn Extension Study of Maralixibat in Patients With Progressive Familial Intrahepatic Cholestasis (PFIC)
NCT05543187PHASE3COMPLETEDA Study of TAK-625 for the Treatment of Progressive Familial Intrahepatic Cholestasis (PFIC)
NCT02057718PHASE2COMPLETEDOpen Label Study to Evaluate Efficacy and Long Term Safety of LUM001 (Maralixibat) in the Treatment of Cholestatic Liver Disease in Patients With Progressive Familial Intrahepatic Cholestasis
NCT04729751PHASE2COMPLETEDA Study to Evaluate the Safety and Tolerability of Maralixibat in Infant Participants With Cholestatic Liver Diseases Including Progressive Familial Intrahepatic Cholestasis (PFIC) and Alagille Syndrome (ALGS).
NCT02963077PHASE1COMPLETEDA Safety and Pharmakokinetic Study of A4250 Alone or in Combination With A3384
NCT03082937PHASE1COMPLETEDAn Open Label, Single-dose, Single Period ADME Study of A4250 in Healthy Subjects
NCT03428555Not specifiedUNKNOWNIntegrated Care Pathway for Youth Depression
NCT01784718Not specifiedNO_LONGER_AVAILABLEBuphenyl Therapy for Byler’s Disease
NCT01949766Not specifiedNO_LONGER_AVAILABLETransition From Buphenyl to RAVICTI for the Therapy of Byler Disease
NCT02094222Not specifiedNO_LONGER_AVAILABLEExpanded Access Protocol for an Intermediate Size Population - RAVICTI for Byler Disease
NCT02131623Not specifiedCOMPLETEDValidation of the Itch Reported Outcome (ItchRO) Diaries in Pediatric Cholestatic Liver Disease
NCT03930810Not specifiedENROLLING_BY_INVITATIONNAtural Course and Prognosis of PFIC and Effect of Biliary Diversion
NCT04071197Not specifiedUNKNOWNGastrostomy-Biliary Diversion: Innovative Management for Bile Canalicular Transport Disorders
NCT04483531Not specifiedAPPROVED_FOR_MARKETINGOdevixibat for the Treatment of Progressive Familial Intrahepatic Cholestasis
NCT05687474Not specifiedCOMPLETEDBaby Detect : Genomic Newborn Screening
NCT05704517Not specifiedUNKNOWNProgressive Familial Intrahepatic Cholestasis in Indian Children - Establishing an Indian PFIC Registry
NCT06193928Not specifiedRECRUITINGLong-Term SafEty and Clinical Outcomes of LivmArli in Patients in the United States (LEAP-US)
NCT06777914Not specifiedRECRUITINGFamilial Intrahepatic Cholestasis-related Genes Associated with Disease Susceptibility in Hepato-biliary Cancers
NCT06778174Not specifiedRECRUITINGProspective Analysis of the Treatment of Progressive Familial Intrahepatic Cholestasis (TreatFIC)
NCT06781242Not specifiedRECRUITINGGenotype-phenotype Relationship Between Cryptogenic Cholestasis and Familial Intrahepatic Cholestasis
NCT07185919Not specifiedRECRUITINGA Study of the Effectiveness, Safety and the Long-term Outcomes of Participants With Progressive Familial Intrahepatic Cholestasis (PFIC) Who Take Odevixibat (Bylvay) in South Korea
NCT07293897Not specifiedRECRUITINGA Database Study of Maralixibat (TAK-625) in Participants With Alagille Syndrome (ALGS) and Progressive Familial Intrahepatic Cholestasis (PFIC)
NCT07317193Not specifiedRECRUITINGDEFINING THE GENETIC DRIVERS OF ADULT-ONSET CHOLESTATIC LIVER DISEASE
NCT07588880Not specifiedRECRUITINGA Study of the Effectiveness, Safety and the Long-term Outcomes of Participants With Progressive Familial Intrahepatic Cholestasis (PFIC) Who Take Odevixibat (Bylvay) in China