ANTXR1

gene
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Also known as TEM8FLJ21776FLJ10601ATR

Summary

ANTXR1 (ANTXR cell adhesion molecule 1, HGNC:21014) is a protein-coding gene on chromosome 2p13.3, encoding Anthrax toxin receptor 1 (Q9H6X2). Plays a role in cell attachment and migration. It is a common-essential gene (DepMap: required in 97.4% of cancer cell lines).

This gene encodes a type I transmembrane protein and is a tumor-specific endothelial marker that has been implicated in colorectal cancer. The encoded protein has been shown to also be a docking protein or receptor for Bacillus anthracis toxin, the causative agent of the disease, anthrax. The binding of the protective antigen (PA) component, of the tripartite anthrax toxin, to this receptor protein mediates delivery of toxin components to the cytosol of cells. Once inside the cell, the other two components of anthrax toxin, edema factor (EF) and lethal factor (LF) disrupt normal cellular processes. Three alternatively spliced variants that encode different protein isoforms have been described.

Source: NCBI Gene 84168 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): GAPO syndrome (Definitive, ClinGen) — +6 more curated relationships
  • GWAS associations: 39
  • Clinical variants (ClinVar): 4,402 total — 98 pathogenic, 52 likely-pathogenic
  • Phenotypes (HPO): 102
  • Cancer driver (intOGen): loss-of-function (tumor-suppressor-like) across 4 cancer types
  • Cancer dependency (DepMap): dependent in 97.4% of screened cell lines (common-essential)
  • Dosage sensitivity (ClinGen): haploinsufficiency little evidence, triplosensitivity no evidence
  • MANE Select transcript: NM_032208

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:21014
Approved symbolANTXR1
NameANTXR cell adhesion molecule 1
Location2p13.3
Locus typegene with protein product
StatusApproved
AliasesTEM8, FLJ21776, FLJ10601, ATR
Ensembl geneENSG00000169604
Ensembl biotypeprotein_coding
OMIM606410
Entrez84168

Gene structure

Transcript identifiers

Ensembl transcripts: 12 — 8 protein_coding, 3 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000303714, ENST00000409349, ENST00000409829, ENST00000463335, ENST00000481119, ENST00000482235, ENST00000497197, ENST00000679548, ENST00000681059, ENST00000681568, ENST00000681816, ENST00000894109

RefSeq mRNA: 4 — MANE Select: NM_032208 NM_001410840, NM_018153, NM_032208, NM_053034

CCDS: CCDS1892, CCDS46313, CCDS46314, CCDS92773

Canonical transcript exons

ENST00000303714 — 18 exons

ExonStartEnd
ENSE000011300526924522569249327
ENSE000011646486919333569193415
ENSE000011646556918249369182660
ENSE000011646616918178669181881
ENSE000011907376912456569124643
ENSE000013601566915216969152264
ENSE000013601626910284269102940
ENSE000013601936912301769123086
ENSE000014345186917024869170289
ENSE000019202556901317969013651
ENSE000035044376907740869077488
ENSE000035768106907175469071787
ENSE000035794436909085969090919
ENSE000035984626907302269073101
ENSE000036119276907559069075658
ENSE000036482136907064769070728
ENSE000036563856904004469040115
ENSE000036657496904474269044813

Expression profiles

Bgee: expression breadth ubiquitous, 270 present calls, max score 99.54.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 30.1293 / max 866.6649, expressed in 1356 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter IDTPM avgSamples expressed
2074113.50111075
207439.78831279
207452.9893606
207442.94931063
207420.9014402

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
stromal cell of endometriumCL:000225599.54gold quality
deciduaUBERON:000245099.41gold quality
palpebral conjunctivaUBERON:000181299.35gold quality
saphenous veinUBERON:000731899.23gold quality
vena cavaUBERON:000408799.06gold quality
tendon of biceps brachiiUBERON:000818899.02gold quality
right coronary arteryUBERON:000162598.99gold quality
synovial jointUBERON:000221798.77gold quality
pericardiumUBERON:000240798.65gold quality
urethraUBERON:000005798.54gold quality
thoracic aortaUBERON:000151598.45gold quality
ascending aortaUBERON:000149698.44gold quality
descending thoracic aortaUBERON:000234598.27gold quality
mammalian vulvaUBERON:000099798.24gold quality
skin of hipUBERON:000155498.23gold quality
germinal epithelium of ovaryUBERON:000130498.21gold quality
tibiaUBERON:000097998.15gold quality
aortaUBERON:000094798.09gold quality
coronary arteryUBERON:000162198.07gold quality
gall bladderUBERON:000211098.00gold quality
left coronary arteryUBERON:000162697.92gold quality
mammary ductUBERON:000176597.91gold quality
arteryUBERON:000163797.84gold quality
popliteal arteryUBERON:000225097.81gold quality
tibial arteryUBERON:000761097.81gold quality
visceral pleuraUBERON:000240197.80gold quality
calcaneal tendonUBERON:000370197.74gold quality
trigeminal ganglionUBERON:000167597.56gold quality
superficial temporal arteryUBERON:000161497.37gold quality
tendonUBERON:000004397.34gold quality

Single-cell (SCXA)

Detected in 8 experiment(s), a significant marker in 6.

ExperimentMarker?Max mean expression
E-GEOD-135922yes54.53
E-MTAB-8410yes41.62
E-ANND-3yes19.68
E-CURD-119yes9.74
E-GEOD-83139yes6.63
E-ENAD-27yes6.55
E-GEOD-124858no429.83
E-MTAB-10290no204.13

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): TP53

miRNA regulators (miRDB)

203 targeting ANTXR1, 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-3134100.0066.43777
HSA-MIR-4692100.0067.322066
HSA-MIR-9-5P100.0072.282361
HSA-MIR-1277-5P100.0073.955056
HSA-LET-7A-3P100.0074.033932
HSA-LET-7B-3P100.0074.083913
HSA-LET-7F-1-3P100.0074.023928
HSA-MIR-98-3P100.0074.083907
HSA-MIR-518D-5P100.0067.51979
HSA-MIR-518E-5P100.0067.66954
HSA-MIR-518F-5P100.0067.51979
HSA-MIR-519A-5P100.0067.66954
HSA-MIR-519B-5P100.0067.66954
HSA-MIR-519C-5P100.0067.66954
HSA-MIR-520C-5P100.0067.51979
HSA-MIR-522-5P100.0067.66954
HSA-MIR-523-5P100.0067.66954
HSA-MIR-526A-5P100.0067.51979
HSA-MIR-188-3P100.0068.761240
HSA-MIR-520G-5P99.9966.76658
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-451499.9967.101870
HSA-MIR-453499.9966.581907
HSA-MIR-477599.9875.006394
HSA-MIR-19A-3P99.9875.332762
HSA-MIR-19B-3P99.9875.442754
HSA-MIR-548AN99.9770.912817
HSA-MIR-6793-5P99.9765.95758

Functional genomics

ClinGen dosage: haploinsufficiency 1 (little evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map DepMap (CRISPR cell-line fitness): dependent in 97.4% of screened cell lines, common-essential.

Literature-anchored findings (GeneRIF, showing 40)

  • Here we describe the cloning of the human PA receptor using a genetic complementation approach (PMID:11700562)
  • ATR/TEM8 protein is highly expressed in epithelial cells, which represent the primary location for bacterial invasion. (PMID:15689409)
  • This is the first demonstration that the ATR/TEM8 protein is highly expressed in epithelial cells, suggesting that the ATR/TEM8 expression pattern is highly relevant for understanding the pathogenesis of anthrax infection. (PMID:15689409)
  • results indicate that TEM8 plays a positive role in endothelial cell activities related to angiogenesis (PMID:15777794)
  • These results suggest that the TEM-8 vW and transmembrane domains may play an important biological role in TEM-8 related tubule formation. (PMID:15993844)
  • because protective antigen binds to CMG2 with much higher affinity than it does to TEM8, a lower pH is needed to attenuate CMG2 binding to allow pore formation; toxin can form pores at different points in the endocytic pathway (PMID:16141341)
  • Data show that cells expressing palmitoylation-defective mutant receptors are less sensitive to anthrax toxin due to a lower number of surface receptors as well as premature internalization of protective antigen without a requirement for heptamerization. (PMID:16401723)
  • TEM8 is a new adhesion molecule linking collagen I or PA to the actin cytoskeleton (PMID:16762926)
  • TEM8 expression levels in DC-based therapeutic vaccines would allow the selection of a subgroup of patients who are most likely to benefit from therapeutic vaccination. (PMID:19440709)
  • ANTXR1 does not use an adaptor to bind the cytoskeleton. This peptide orders actin filaments into arrays, demonstrating an actin bundling activity that is novel for a membrane protein (PMID:19817382)
  • actin was also found to be essential for efficient heptamerization of anthrax toxin PA, but only when bound to one of its 2 receptors, TEM8 (PMID:20221438)
  • the crystal structure of the TEM8 extracellular vWA domain at 1.7 A resolution. (PMID:20585457)
  • Data show that the two different PA oligomers are equally stabilized by ANTXR interactions. (PMID:21079738)
  • studies reveal that TEM8 exists in different forms at the cell surface, a structure dependent on interactions with components of the actin cytoskeleton (PMID:21129411)
  • Results describe the expression, purification and crystallization of human anthrax toxin receptor 1 vWA domain to 1.8 A resolution from a single crystal. (PMID:21206026)
  • The copy number of CEA and TEM-8 mRNA, as detected by a real-time quantitative PCR, appears to be a promising marker for evaluating the risk of tumor spread. (PMID:21573768)
  • postulate that the developmentally controlled expression of TEM8 modulates endothelial cell response to canonical Wnt signaling to regulate vessel patterning and density (PMID:21829615)
  • TEM8 was expressed at a higher level in the stroma adjacent to the triple-negative breast cancer in all cases, with focal immunoreactive areas within the tumor. (PMID:21965755)
  • TEM8.1 expression in breast cancer cells confers a more aggressive, proangiogenic phenotype. (PMID:22085271)
  • An acidic region in the cytosolic tail of ANTXR1 decreases actin association, sending a signal that prevents binding of ANTXR1 to the protective antigen and providing evidence that cytoskeletal dynamics regulate ANTXR1 function. (PMID:22303962)
  • Disruption of Tem8 results in impaired growth of human tumor xenografts of diverse origin including melanoma, breast, colon, and lung cancer. (PMID:22340594)
  • Two new splice variants, one encoding a membrane-bound form of the receptor and the other secreted, which we have designated V4 and V5 (the latter being the only variant expressed in the prostate). (PMID:22912819)
  • Mutations affecting ANTXR1 function are responsible for GAPO syndrome’s characteristic generalized defect in extracellular-matrix homeostasis. (PMID:23602711)
  • There is an attenuation of ANTXR1 expression post-infection which may be a protective mechanism that has evolved to prevent reinfection. (PMID:23607659)
  • High ANTXR1 accelerates breast tumor growth and lung metastasis. (PMID:23832666)
  • ANTXR2 is expressed by human uterine smooth muscle cell and appears important for normal human uterine smooth muscle cell viability, migration and contractility. (PMID:24060446)
  • TEM8-targeted siRNAs also offered significant protection against lethal toxin in human macrophage-like cells. (PMID:24742682)
  • These studies expand the allelic spectrum in this rare condition and potentially provide insight into the role of ANTXR1 in the regulation of the extracellular matrix. (PMID:25045128)
  • In the absence of any N-linked glycans, TEM8 fails to fold correctly and is recognized by the ER quality control machinery. (PMID:25781883)
  • TEM8 may be differentially expressed between wound types and loss of this molecule impacts HaCaT growth and migration, potentially implicating this molecule as a factor involved in successful progression of wound healing. (PMID:26677171)
  • Findings suggest that down-regulation of tumor endothelial marker 8 play an important role in the inhibition of tumorigenesis and development of osteosarcoma. (PMID:26996335)
  • expression does not affect cytotoxicity to anthrax toxin (PMID:27170489)
  • Consistent with experimental study, computational results indicate the metal ion in TEM8 contributes significantly to the binding affinity, and anthrax protective antigen-TEM8 binding is more favorable in the presence of Mg(2+) than Ca(2+) . (PMID:28437008)
  • These studies identify ANTXR1, a class of receptor that is shared by a mammalian virus and a bacterial toxin, as the cellular receptor for Seneca Valley virus. (PMID:28650343)
  • Novel targets ANTXR1 and RSPO2 were confirmed to be suppressed by miR-493 directly. (PMID:28651234)
  • Silencing TEM8 may inhibit proliferation of XWLC05 lung cancer cells, promote cell apoptosis, arrest the cell cycle at G1 phase and decrease the migration and invasive ability. (PMID:29115620)
  • Our findings implicate ANTXR1 as a candidate gene for isolated TA, suggest the involvement of specific hypomorphic alleles, and expand the previously known ANTXR1-associated phenotypes. (PMID:29436111)
  • The frequency of the CC genotype of rs4527238 was observed to be high in the low HbF patient group compared to the high HbF group. (PMID:30114697)
  • TEM8 is a novel receptor for uPA (PMID:30241478)
  • inspection showed that MSLN (Mesothelin), ANTXR1 (TEM8), and MUC3A are the probable targets of CAR T cell therapy in gastric adenocarcinoma. (PMID:30260046)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_rerioantxr1aENSDARG00000025672
danio_rerioantxr1bENSDARG00000074075
mus_musculusAntxr1ENSMUSG00000033420
rattus_norvegicusAntxr1ENSRNOG00000008678

Paralogs (2): ANTXR2 (ENSG00000163297), ANTXRL (ENSG00000274209)

Protein

Protein identifiers

Anthrax toxin receptor 1Q9H6X2 (reviewed: Q9H6X2)

Alternative names: Tumor endothelial marker 8

All UniProt accessions (4): A0A7P0T9B0, A0A7P0Z463, Q9H6X2, H0YC24

UniProt curated annotations — full annotation on UniProt →

Function. Plays a role in cell attachment and migration. Interacts with extracellular matrix proteins and with the actin cytoskeleton and thereby plays an important role in normal extracellular matrix (ECM) homeostasis. Mediates adhesion of cells to type 1 collagen and gelatin, reorganization of the actin cytoskeleton and promotes cell spreading. Plays a role in the angiogenic response of cultured umbilical vein endothelial cells. May also act as a receptor for PLAU. Upon ligand binding, stimulates the phosphorylation of EGFR and ERK1/2. (Microbial infection) Acts as a receptor for protective antigen (PA) of B.anthracis. (Microbial infection) Mediates cell entry of Seneca Valley virus (SVV) when glycosylated.

Subunit / interactions. Interacts with gelatin and type 1 collagen. Interacts with the actin cytoskeleton. (Microbial infection) Interacts (via VWFA domain) with the protective antigen (PA) of B.anthracis. Binding does not occur in the presence of calcium.

Subcellular location. Cell membrane. Cell projection. Lamellipodium membrane. Filopodium membrane.

Tissue specificity. Detected in umbilical vein endothelial cells (at protein level). Highly expressed in tumor endothelial cells.

Post-translational modifications. Glycosylated. Glycosylation is essential for Seneca Valley virus (SVV) attachment and entry. Phosphorylated upon PLAU binding.

Disease relevance. Hemangioma, capillary infantile (HCI) [MIM:602089] A condition characterized by dull red, firm, dome-shaped hemangiomas, sharply demarcated from surrounding skin, usually presenting at birth or occurring within the first two or three months of life. They result from highly proliferative, localized growth of capillary endothelium and generally undergo regression and involution without scarring. Disease susceptibility is associated with variants affecting the gene represented in this entry. GAPO syndrome (GAPOS) [MIM:230740] An autosomal recessive disease characterized by growth retardation, alopecia, failure of tooth eruption, and progressive optic atrophy in some patients. The disease is caused by variants affecting the gene represented in this entry.

Induction. Up-regulated in cultured angiogenic umbilical vein endothelial cells.

Miscellaneous. May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay. Prostate-specific.

Similarity. Belongs to the ATR family.

Isoforms (6)

UniProt IDNamesCanonical?
Q9H6X2-11yes
Q9H6X2-22
Q9H6X2-33
Q9H6X2-44
Q9H6X2-55, V4
Q9H6X2-66, V5

RefSeq proteins (4): NP_001397769, NP_060623, NP_115584, NP_444262 (=MANE)

Domains & families (InterPro)

IDNameType
IPR002035VWF_ADomain
IPR008399Anthrax_toxin_rcpt_CDomain
IPR008400Anthrax_toxin_rcpt_extracelDomain
IPR017360Anthrax_toxin_rcptFamily
IPR036465vWFA_dom_sfHomologous_superfamily

Pfam: PF00092, PF05586, PF05587

UniProt features (46 total): splice variant 9, helix 8, strand 6, region of interest 4, binding site 3, glycosylation site 3, compositionally biased region 2, topological domain 2, sequence variant 2, signal peptide 1, chain 1, modified residue 1, disulfide bond 1, transmembrane region 1, turn 1, domain 1

Structure

Experimental structures (PDB)

5 structures.

PDBMethodResolution (Å)
3N2NX-RAY DIFFRACTION1.8
6ADMELECTRON MICROSCOPY2.84
6ADLELECTRON MICROSCOPY3.08
6ADRELECTRON MICROSCOPY3.38
6CX1ELECTRON MICROSCOPY3.8

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9H6X2-F172.760.38

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 (3): 52; 54; 118

Post-translational modifications (1): 362

Disulfide bonds (1): 39–220

Glycosylation sites (3): 166, 184, 262

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-5210891Uptake and function of anthrax toxins

MSigDB gene sets: 870 (showing top): PID_FANCONI_PATHWAY, GOBP_DNA_TEMPLATED_DNA_REPLICATION_MAINTENANCE_OF_FIDELITY, GOBP_REGULATION_OF_DOUBLE_STRAND_BREAK_REPAIR, GOBP_RNA_TEMPLATED_DNA_BIOSYNTHETIC_PROCESS, GOBP_CHROMOSOME_ORGANIZATION, RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP, FLECHNER_PBL_KIDNEY_TRANSPLANT_REJECTED_VS_OK_UP, GOBP_RESPONSE_TO_IONIZING_RADIATION, GOBP_POSITIVE_REGULATION_OF_DNA_DAMAGE_RESPONSE_SIGNAL_TRANSDUCTION_BY_P53_CLASS_MEDIATOR, BUYTAERT_PHOTODYNAMIC_THERAPY_STRESS_DN, GOBP_POSITIVE_REGULATION_OF_DNA_BIOSYNTHETIC_PROCESS, GOBP_REGULATION_OF_ERBB_SIGNALING_PATHWAY, RODRIGUES_THYROID_CARCINOMA_POORLY_DIFFERENTIATED_UP, REACTOME_MEIOTIC_SYNAPSIS, GOBP_CELLULAR_RESPONSE_TO_UV

GO Biological Process (6): blood vessel development (GO:0001568), actin cytoskeleton organization (GO:0030036), substrate adhesion-dependent cell spreading (GO:0034446), positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742), negative regulation of extracellular matrix assembly (GO:1901202), epidermal growth factor receptor signaling pathway (GO:0007173)

GO Molecular Function (6): transmembrane signaling receptor activity (GO:0004888), collagen binding (GO:0005518), signaling receptor activity (GO:0038023), metal ion binding (GO:0046872), actin filament binding (GO:0051015), protein binding (GO:0005515)

GO Cellular Component (8): plasma membrane (GO:0005886), external side of plasma membrane (GO:0009897), cell surface (GO:0009986), endosome membrane (GO:0010008), lamellipodium membrane (GO:0031258), filopodium membrane (GO:0031527), membrane (GO:0016020), cell projection (GO:0042995)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Uptake and actions of bacterial toxins1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure3
protein-containing complex binding2
cell projection membrane2
vasculature development1
anatomical structure development1
cytoskeleton organization1
actin filament-based process1
cell-substrate adhesion1
epidermal growth factor receptor signaling pathway1
regulation of epidermal growth factor receptor signaling pathway1
positive regulation of ERBB signaling pathway1
extracellular matrix assembly1
regulation of extracellular matrix assembly1
negative regulation of extracellular matrix organization1
ERBB signaling pathway1
signaling receptor activity1
molecular transducer activity1
cation binding1
actin binding1
binding1
membrane1
cell periphery1
plasma membrane1
cell surface1
side of membrane1
endosome1
cytoplasmic vesicle membrane1
bounding membrane of organelle1
lamellipodium1
leading edge membrane1
filopodium1

Protein interactions and networks

STRING

1758 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ANTXR1LRP6O75581814
ANTXR1VWFP04275809
ANTXR1KDRP35968745
ANTXR1FURINP09958741
ANTXR1DUSP5Q16690557
ANTXR1DKK2Q9UBU2547
ANTXR1FZD1Q9UP38546
ANTXR1PLXDC1Q8IUK5544
ANTXR1FLT1P16057537
ANTXR1PI4K2AQ9BTU6516
ANTXR1CD248Q9HCU0507
ANTXR1SOSTQ9BQB4496
ANTXR1PTH1RQ03431490
ANTXR1LRP5O75197475
ANTXR1OR8J1Q8NGP2470

IntAct

68 interactions, top by confidence:

ABTypeScore
LMO1ZBTB43psi-mi:“MI:0914”(association)0.830
PRMT2SAMD1psi-mi:“MI:0914”(association)0.640
STX12SNAP23psi-mi:“MI:0914”(association)0.640
ANTXR1POTEFpsi-mi:“MI:0914”(association)0.530
IL13RA2METTL15psi-mi:“MI:0914”(association)0.530
FCGRTGOLIM4psi-mi:“MI:0914”(association)0.530
SPACA1GOLIM4psi-mi:“MI:0914”(association)0.530
OCLNDNAJC13psi-mi:“MI:0914”(association)0.530
TNFSF8LGALS8psi-mi:“MI:0914”(association)0.530
SPSB2ARHGEF10psi-mi:“MI:0914”(association)0.530
ANTXR1WFS1psi-mi:“MI:0914”(association)0.530
ANTXR1PCOLCEpsi-mi:“MI:0407”(direct interaction)0.440
LRP6ANTXR1psi-mi:“MI:0915”(physical association)0.400
Ppp1cbMYO1Cpsi-mi:“MI:0914”(association)0.350
Bsdc1SSBpsi-mi:“MI:0914”(association)0.350
GJB2SNX3psi-mi:“MI:0914”(association)0.350
MYO19PLEKHG3psi-mi:“MI:0914”(association)0.350
KLF8psi-mi:“MI:0914”(association)0.350
SYN1LUC7L3psi-mi:“MI:0914”(association)0.350
FLNAPLEKHG3psi-mi:“MI:0914”(association)0.350
Sidt2PRSS1psi-mi:“MI:0914”(association)0.350
Tecpr2PUF60psi-mi:“MI:0914”(association)0.350
MYH9NAP1L1psi-mi:“MI:0914”(association)0.350
MYH9PLEKHG3psi-mi:“MI:0914”(association)0.350

BioGRID (213): ANTXR1 (Affinity Capture-MS), TUBB3 (Affinity Capture-MS), RSAD1 (Affinity Capture-MS), CA11 (Affinity Capture-MS), ZNF146 (Affinity Capture-MS), POTEF (Affinity Capture-MS), TUBB8 (Affinity Capture-MS), HSPA5 (Affinity Capture-MS), KANK2 (Affinity Capture-MS), RICTOR (Affinity Capture-MS), LRP11 (Affinity Capture-MS), PDIA5 (Affinity Capture-MS), TUBA4A (Affinity Capture-MS), TUBA1A (Affinity Capture-MS), PC (Affinity Capture-MS)

ESM2 similar proteins: A1XQX1, A1XQX3, A1XQY0, A8WGA3, C6K2K4, D0PRN2, D0PRN4, D4A1J9, E9PUN2, O13097, O42596, O73612, O73874, P0DI97, P52795, P52796, P58400, P58401, P98172, Q01974, Q0PMD2, Q17QD6, Q28142, Q28143, Q460M5, Q63373, Q63376, Q6NW40, Q6PCX7, Q6PFE7, Q7TQ33, Q80TG9, Q8BNJ6, Q8BXA0, Q8C985, Q8IYR6, Q8NC67, Q91590, Q96B86, Q96NI6

Diamond homologs: A6NF34, P58335, Q0PMD2, Q4R7B7, Q6DFX2, Q8BVM2, Q9CZ52, Q9H6X2

SIGNOR signaling

0 interactions.

Disease & clinical

Cancer significance

From intOGen — cancer-driver classification: loss-of-function (tumor-suppressor-like) across 4 cancer types — LUNG, MEL, STAD, UTUC.

Clinical variants and AI predictions

ClinVar

4402 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic98
Likely pathogenic52
Uncertain significance2294
Likely benign1591
Benign161

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1069016NM_001184.4(ATR):c.5851C>T (p.Arg1951Ter)Pathogenic
1072254NM_001184.4(ATR):c.4915_4918dup (p.Thr1640fs)Pathogenic
1072974NC_000003.11:g.(?142272059)(142275427_?)delPathogenic
1076365NM_001184.4(ATR):c.529C>T (p.Arg177Ter)Pathogenic
1076685NM_001184.4(ATR):c.5563del (p.His1855fs)Pathogenic
1076770NM_001184.4(ATR):c.3402dup (p.Asn1135Ter)Pathogenic
1357123NC_000003.12:g.142536202delPathogenic
1372183NM_001184.4(ATR):c.6836dup (p.Asn2279fs)Pathogenic
1376891NM_001184.4(ATR):c.5656C>T (p.Arg1886Ter)Pathogenic
1378337NM_001184.4(ATR):c.5786_5787insCTAGAAAG (p.Arg1929delinsSerTer)Pathogenic
1417890NM_001184.4(ATR):c.5870_5877dup (p.Ala1960fs)Pathogenic
1421134NM_001184.4(ATR):c.3567_3568dup (p.Glu1190fs)Pathogenic
1423201NM_001184.4(ATR):c.4896dup (p.Leu1633fs)Pathogenic
1423837NM_001184.4(ATR):c.2593_2594dup (p.Leu865_Lys866insTer)Pathogenic
1434427NM_001184.4(ATR):c.5218dup (p.Val1740fs)Pathogenic
1444557NM_001184.4(ATR):c.392T>A (p.Leu131Ter)Pathogenic
1452399NM_001184.4(ATR):c.6022C>T (p.Arg2008Ter)Pathogenic
1453489NM_001184.4(ATR):c.5679del (p.Tyr1894fs)Pathogenic
1453747NM_001184.4(ATR):c.3856C>T (p.Gln1286Ter)Pathogenic
1454309NM_001184.4(ATR):c.1885dup (p.Ser629fs)Pathogenic
1458489NM_001184.4(ATR):c.7550_7553dup (p.Asn2518delinsLysTer)Pathogenic
156536NM_001184.4(ATR):c.3477G>T (p.Met1159Ile)Pathogenic
1897758NM_001184.4(ATR):c.1953G>A (p.Trp651Ter)Pathogenic
1906193NM_001184.4(ATR):c.5029C>T (p.Gln1677Ter)Pathogenic
1970626NM_001184.4(ATR):c.5863dup (p.Leu1955fs)Pathogenic
2007236NM_001184.4(ATR):c.4912C>T (p.Gln1638Ter)Pathogenic
2022356NM_001184.4(ATR):c.2137C>T (p.Gln713Ter)Pathogenic
2039249NM_001184.4(ATR):c.1492C>T (p.Gln498Ter)Pathogenic
2043590NM_001184.4(ATR):c.6463G>T (p.Glu2155Ter)Pathogenic
2044496NM_001184.4(ATR):c.4507C>T (p.Arg1503Ter)Pathogenic

SpliceAI

10456 predictions. Top by Δscore:

VariantEffectΔscore
2:69013652:G:GGdonor_gain1.0000
2:69038925:A:Tdonor_gain1.0000
2:69040042:A:AGacceptor_gain1.0000
2:69040043:G:GGacceptor_gain1.0000
2:69044740:A:AGacceptor_gain1.0000
2:69044740:A:ATacceptor_loss1.0000
2:69044741:G:GAacceptor_gain1.0000
2:69044741:G:GTacceptor_loss1.0000
2:69044815:T:Gdonor_loss1.0000
2:69070645:A:AGacceptor_gain1.0000
2:69070646:G:GGacceptor_gain1.0000
2:69070646:GA:Gacceptor_gain1.0000
2:69077397:T:Aacceptor_gain1.0000
2:69089501:GAAA:Gdonor_gain1.0000
2:69090916:GGAG:Gdonor_gain1.0000
2:69090917:GAGG:Gdonor_gain1.0000
2:69102835:A:AGacceptor_gain1.0000
2:69102836:TTTCA:Tacceptor_loss1.0000
2:69102837:TTCA:Tacceptor_loss1.0000
2:69102838:TCA:Tacceptor_loss1.0000
2:69102839:CAG:Cacceptor_gain1.0000
2:69102840:A:AGacceptor_gain1.0000
2:69102840:AGA:Aacceptor_gain1.0000
2:69102841:G:Cacceptor_gain1.0000
2:69102841:G:GCacceptor_gain1.0000
2:69102841:GA:Gacceptor_gain1.0000
2:69102841:GAGT:Gacceptor_gain1.0000
2:69102841:GAGTC:Gacceptor_gain1.0000
2:69102937:CTCA:Cdonor_gain1.0000
2:69102941:G:GGdonor_gain1.0000

AlphaMissense

3669 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:69013614:T:CC39R1.000
2:69013616:C:GC39W1.000
2:69013633:T:CL45P1.000
2:69013647:G:CD50H1.000
2:69013648:A:CD50A1.000
2:69013648:A:TD50V1.000
2:69040066:T:AW59R1.000
2:69040066:T:CW59R1.000
2:69040068:G:CW59C1.000
2:69040068:G:TW59C1.000
2:69044758:T:CS81P1.000
2:69044770:T:CF85L1.000
2:69044772:C:AF85L1.000
2:69044772:C:GF85L1.000
2:69070676:T:CL109P1.000
2:69070717:G:AG123R1.000
2:69070717:G:CG123R1.000
2:69070718:G:AG123E1.000
2:69073049:C:AA147D1.000
2:69073052:T:CL148S1.000
2:69073058:A:TD150V1.000
2:69073059:T:AD150E1.000
2:69073059:T:GD150E1.000
2:69073061:G:AG151E1.000
2:69073061:G:TG151V1.000
2:69075626:T:CC177R1.000
2:69075627:G:AC177Y1.000
2:69075628:T:GC177W1.000
2:69075630:T:AV178D1.000
2:69075632:G:CG179R1.000

dbSNP variants (sampled 300 via entrez): RS1000008474 (2:69166000 T>C), RS1000017952 (2:69084725 G>A,T), RS1000090163 (2:69213088 T>G), RS1000123026 (2:69059174 A>G), RS1000130170 (2:69089333 C>T), RS1000147298 (2:69149072 T>C), RS1000149572 (2:69207540 G>C,T), RS1000152992 (2:69077756 C>T), RS1000164337 (2:69233288 C>A), RS1000181165 (2:69222851 C>A), RS1000199133 (2:69171740 A>G), RS1000205696 (2:69056094 A>G), RS1000205949 (2:69090749 A>G), RS1000237211 (2:69177273 A>G), RS1000237862 (2:69059470 C>T)

Disease associations

OMIM: gene MIM:606410 | disease phenotypes: MIM:210600, MIM:614564, MIM:230740, MIM:600057, MIM:602089, MIM:114480, MIM:122470

GenCC curated gene-disease

DiseaseClassificationInheritance
GAPO syndromeDefinitiveAutosomal recessive
Seckel syndrome 1DefinitiveAutosomal recessive
sarcomaModerateAutosomal dominant
familial cutaneous telangiectasia and oropharyngeal predisposition cancer syndromeModerateAutosomal dominant
Seckel syndromeSupportiveAutosomal recessive
capillary infantile hemangiomaLimitedAutosomal dominant
familial prostate carcinomaLimitedAutosomal dominant

ClinGen Gene-Disease Validity (1)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
GAPO syndromeDefinitiveAR

Mondo (15): Seckel syndrome 1 (MONDO:0008869), familial cutaneous telangiectasia and oropharyngeal predisposition cancer syndrome (MONDO:0013806), GAPO syndrome (MONDO:0009263), hereditary neoplastic syndrome (MONDO:0015356), bladder exstrophy-epispadias-cloacal exstrophy complex (MONDO:0700039), capillary infantile hemangioma (MONDO:0011191), hereditary breast carcinoma (MONDO:0016419), Cornelia de Lange syndrome 1 (MONDO:0007387), hereditary breast ovarian cancer syndrome (MONDO:0003582), ATR-X-related syndrome (MONDO:0016980), Seckel syndrome (MONDO:0019342), breast cancer (MONDO:0007254), microcephaly (MONDO:0001149), familial prostate carcinoma (MONDO:0023122), sarcoma (MONDO:0005089)

Orphanet (12): Familial cutaneous telangiectasia and oropharyngeal cancer predisposition syndrome (Orphanet:313846), Seckel syndrome (Orphanet:808), GAPO syndrome (Orphanet:2067), Inherited cancer-predisposing syndrome (Orphanet:140162), Classic bladder exstrophy (Orphanet:93930), Hereditary breast cancer (Orphanet:227535), Cornelia de Lange syndrome (Orphanet:199), Hereditary breast and/or ovarian cancer syndrome (Orphanet:145), Microcephalic primordial dwarfism (Orphanet:324761), NON RARE IN EUROPE: Infantile capillary hemangioma (Orphanet:464293), OBSOLETE: Familial capillary hemangioma (Orphanet:91415), OBSOLETE: ATR-X-related syndrome (Orphanet:263355)

HPO phenotypes

102 total (30 of 102 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000007Autosomal recessive inheritance
HP:0000135Hypogonadism
HP:0000141Amenorrhea
HP:0000174Abnormal palate morphology
HP:0000179Thick lower lip vermilion
HP:0000232Everted lower lip vermilion
HP:0000260Wide anterior fontanel
HP:0000274Small face
HP:0000286Epicanthus
HP:0000303Mandibular prognathia
HP:0000316Hypertelorism
HP:0000336Prominent supraorbital ridges
HP:0000337Broad forehead
HP:0000343Long philtrum
HP:0000347Micrognathia
HP:0000348High forehead
HP:0000365Hearing impairment
HP:0000369Low-set ears
HP:0000411Protruding ear
HP:0000453Choanal atresia
HP:0000463Anteverted nares
HP:0000485Megalocornea
HP:0000486Strabismus
HP:0000501Glaucoma
HP:0000505Visual impairment
HP:0000545Myopia
HP:0000563Keratoconus
HP:0000565Esotropia
HP:0000586Shallow orbits

GWAS associations

39 associations (top):

StudyTraitp-value
GCST001263_23Height1.000000e-08
GCST004601_47Red blood cell count9.000000e-25
GCST004619_131Reticulocyte fraction of red cells3.000000e-09
GCST004622_165Reticulocyte count7.000000e-16
GCST005170_39Intraocular pressure2.000000e-13
GCST005580_240Intraocular pressure9.000000e-17
GCST005580_65Intraocular pressure5.000000e-12
GCST005993_70Mean corpuscular hemoglobin1.000000e-35
GCST005996_57Red blood cell count5.000000e-09
GCST006011_101Mean corpuscular volume2.000000e-44
GCST006394_46Intraocular pressure3.000000e-11
GCST006395_6Glaucoma2.000000e-06
GCST006412_24Intraocular pressure7.000000e-13
GCST006804_192Red cell distribution width3.000000e-08
GCST007600_69Alzheimer’s disease4.000000e-06
GCST008839_187Height9.000000e-09
GCST008839_416Height3.000000e-10
GCST009725_42Intraocular pressure2.000000e-11
GCST012245_5Periodontitis (stage III/IV grade C)3.000000e-06
GCST012365_3Orofacial cleft x maternal periconceptional multivitamin use interaction (1df)1.000000e-06
GCST90000025_751Appendicular lean mass3.000000e-09
GCST90002381_190Eosinophil count6.000000e-10
GCST90002386_563High light scatter reticulocyte percentage of red cells5.000000e-18
GCST90002390_169Mean corpuscular hemoglobin3.000000e-19
GCST90002390_170Mean corpuscular hemoglobin2.000000e-10
GCST90002390_171Mean corpuscular hemoglobin2.000000e-56
GCST90002392_315Mean corpuscular volume9.000000e-26
GCST90002392_316Mean corpuscular volume8.000000e-11
GCST90002392_317Mean corpuscular volume6.000000e-69
GCST90002396_254Mean reticulocyte volume8.000000e-19

EFO canonical traits (10, from GWAS)

EFO IDTrait name
EFO:0004305erythrocyte count
EFO:0007986reticulocyte count
EFO:0004695intraocular pressure measurement
EFO:0004527mean corpuscular hemoglobin
EFO:0009188Red cell distribution width
EFO:0009116vitamin supplement exposure measurement
EFO:0004980appendicular lean mass
EFO:0004842eosinophil count
EFO:0010701mean reticulocyte volume
EFO:0008039BMI-adjusted hip circumference

MeSH disease descriptors (7)

DescriptorNameTree numbers
D061325Hereditary Breast and Ovarian Cancer SyndromeC04.588.180.483; C04.588.322.455.431; C04.700.517; C12.050.351.500.056.630.705.431; C12.050.351.937.418.685.431; C12.100.250.056.630.705.431; C12.900.418.685.431; C16.320.700.517; C17.800.090.500.483; C19.344.410.431; C19.391.630.705.431
D008831MicrocephalyC05.660.207.620; C10.500.507.400.500; C16.131.621.207.620; C16.131.666.507.400.500
D009386Neoplastic Syndromes, HereditaryC04.700; C16.320.700
D012509SarcomaC04.557.450.795
C562840Breast Cancer, Familial (supp.)
C535642Growth retardation, Alopecia, Pseudoanodontia and Optic atrophy (supp.)
C535860Hemangioma, capillary infantile (supp.)

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Estradiolaffects cotreatment, increases expression4
methylmercuric chlorideaffects cotreatment, increases expression3
bisphenol Aaffects expression, affects cotreatment, increases methylation, decreases expression3
trichostatin Aaffects cotreatment, increases expression3
Tetrachlorodibenzodioxindecreases expression3
Tretinoinincreases expression, decreases expression3
sodium arsenitedecreases expression, increases abundance2
mercuric bromideincreases expression, affects cotreatment2
entinostatincreases expression, affects cotreatment2
Air Pollutantsincreases abundance, increases expression, decreases expression, affects cotreatment2
Arsenicincreases abundance, affects methylation, decreases expression2
Benzo(a)pyrenedecreases expression, increases methylation2
Phenylmercuric Acetateincreases expression, affects cotreatment2
Progesteroneaffects cotreatment, increases expression2
Rotenonedecreases expression, increases expression2
Tobacco Smoke Pollutiondecreases expression, increases expression2
Valproic Acidincreases expression2
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxidedecreases expression, increases expression2
Cadmium Chloridedecreases expression, increases abundance, increases expression2
p-Chloromercuribenzoic Acidaffects cotreatment, increases expression2
aristolochic acid Idecreases expression1
FR900359increases phosphorylation1
alpha-pineneaffects cotreatment, increases expression, increases abundance1
propionaldehydeincreases expression1
terbufosincreases methylation1
beta-lapachonedecreases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
cobaltous chloridedecreases expression1
butyraldehydedecreases expression1
chloroquine diphosphateincreases expression1

Cellosaurus cell lines

3 cell lines: 3 cancer cell line

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

CellosaurusNameCategorySex
CVCL_B1JKAbcam HeLa ANTXR1 KOCancer cell lineFemale
CVCL_SC63HAP1 ANTXR1 (-) 1Cancer cell lineMale
CVCL_SC64HAP1 ANTXR1 (-) 2Cancer cell lineMale

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT03144206PHASE4ACTIVE_NOT_RECRUITINGHyperbaric Oxygen Therapy for Soft Tissue Sarcoma Pilot Study
NCT03244020PHASE4ENROLLING_BY_INVITATIONLMWH vs Aspirin for VTE Prophylaxis in Orthopaedic Oncology
NCT04033081PHASE4ACTIVE_NOT_RECRUITINGRegistry of Sarcoma Patients Treated With Permanently Implantable LDR CivaSheet®
NCT02562170PHASE4COMPLETEDProtexa® Versus TiLoopBra® in Immediate Breast Reconstruction- A Pilot Study
NCT00014638PHASE4COMPLETEDLetrozole in Treating Postmenopausal Women With Metastatic Breast Cancer
NCT00022386PHASE4COMPLETEDEpoetin Alfa in Treating Chemotherapy-Related Anemia in Women With Stage I, Stage II, or Stage III Breast Cancer
NCT00029224PHASE4COMPLETEDTreatment With Zoledronic Acid in Patients With Breast Cancer, Multiple Myeloma, and Prostate Cancer With Cancer Related Bone Lesions
NCT00030758PHASE4UNKNOWNFilgrastim or Pegfilgrastim in Preventing Neutropenia in Women Receiving Chemotherapy Following Surgery for Breast Cancer
NCT00082277PHASE4COMPLETEDAnastrozole Biphosphonate Study in Postmenopausal Women With Hormone-Receptor-Positive Early Breast Cancer
NCT00087620PHASE4TERMINATEDA Study of Capecitabine In Combination With Docetaxel vs Capecitabine Followed by Docetaxel As First-Line Treatment For Metastatic Breast Cancer
NCT00121836PHASE4COMPLETEDA Study of Xeloda (Capecitabine) in Women With HER2-Negative Metastatic Breast Cancer
NCT00126360PHASE4UNKNOWNSTARS Breast Trial (Study of Anastrozole and Radiotherapy Sequencing Pilot)
NCT00127933PHASE4COMPLETEDXeNA Study - A Study of Xeloda (Capecitabine) in Patients With Invasive Breast Cancer
NCT00128297PHASE4COMPLETEDPamidronate Administration in Breast Cancer Patients With Bone Metastases
NCT00129597PHASE4UNKNOWNEffect of Ketalar to Prevent Postoperative Chronic Pain After Mastectomy
NCT00131170PHASE4COMPLETEDParavertebral Block for Breast Surgery
NCT00156039PHASE4COMPLETEDRandomized Trial of Follow-up Strategies in Breast Cancer
NCT00160901PHASE4COMPLETEDComplementary Therapies for the Reduction of Side Effects During Chemotherapy for Breast Cancer
NCT00171847PHASE4TERMINATEDStudy of the Efficacy and Safety of Letrozole Combined With Trastuzumab in Patients With Metastatic Breast Cancer
NCT00176046PHASE4COMPLETEDMistletoe Extract in Early or Advanced Breast Cancer, A Feasibility Study
NCT00190697PHASE4COMPLETEDA Study of LY353381 (Arzoxifene) for Patients Who Benefitted From This Drug in Other Oncology Trials and Wished to Continue Treatment
NCT00234195PHASE4COMPLETEDWellbutrin XL, Major Depressive Disorder and Breast Cancer
NCT00237133PHASE4COMPLETEDTreatment of Locally Advanced Breast Cancer With Letrozole in Postmenopausal Women
NCT00237224PHASE4COMPLETEDOpen Label Study of Postmenopausal Women With ER and /or PgR Positive Breast Cancer Treated With Letrozole
NCT00241046PHASE4TERMINATEDLetrozole in the Treatment of 1st and 2nd Line Hormone Receptor Positive Breast Cancer: Pre-therapeutic Risk Assessment
NCT00277160PHASE4COMPLETEDA Study of Primary Prophylaxis With Neulasta (Pegfilgrastim) Versus Secondary Prophylaxis After Chemotherapy in Elderly Subjects (>/= 65 Years Old) With Cancer
NCT00323479PHASE4COMPLETEDArthralgia During Anastrozole Therapy for Breast Cancer
NCT00334139PHASE4COMPLETEDEffect of Zoledronic Acid on Bone Metabolism in Patients With Bone Metastasis and Prostate or Breast Cancer
NCT00356148PHASE4COMPLETEDThe Efficacy of Prophylactic Antibiotic Administration During Breast Cancer Surgery in Overweight Patients.
NCT00372476PHASE4COMPLETEDEfficacy and Safety of Imatinib and Vinorelbine in Patients With Advanced Breast Cancer
NCT00413491PHASE4UNKNOWNNational Screening in Denmark With MR Versus Mammography and Ultrasound of Women With BRCA1 or BRCA2 Mutations
NCT00484614PHASE4UNKNOWNStudy the Role of Positron Emission Mammography in Pre-surgical Planning for Breast Cancer
NCT00485953PHASE4COMPLETEDEffect of Bisphosphonate on Bone Loss in Postmenopausal Women With Breast Cancer Initiating Aromatase Inhibitor Therapy
NCT00496678PHASE4COMPLETEDTrial of Patient Navigation-Activation
NCT00531973PHASE4UNKNOWNA Study of Liposomal Doxorubicin in Women With Breast Cancer Exploiting Tissue Doppler Imaging
NCT00537771PHASE4COMPLETEDLiver Safety Under Upfront Arimidex vs Tamoxifen
NCT00544986PHASE4COMPLETEDA Prospective,Open-label Study of Anastrozole in Post-menopausal Women With Hormone Sensitive Advanced Breast Cancer
NCT00613275PHASE4COMPLETEDPatient Navigation in the Safety Net:CONNECTeDD
NCT00638599PHASE4COMPLETEDComparison of Laryngeal Mask Airway (LMA®) and Tracheal Tube in Modified Radical Mastectomy on Breast Cancer
NCT00647075PHASE4UNKNOWNYunzhi as Dietary Supplement in Breast Cancer