SMYD1
geneOn this page
Also known as BOPZMYND22KMT3D
Summary
SMYD1 (SET and MYND domain containing 1, HGNC:20986) is a protein-coding gene on chromosome 2p11.2, encoding Histone-lysine N-methyltransferase SMYD1 (Q8NB12). Methylates histone H3 at ‘Lys-4’ (H3K4me), seems able to perform both mono-, di-, and trimethylation.
Predicted to enable several functions, including histone H3K4 trimethyltransferase activity; transcription corepressor activity; and zinc ion binding activity. Involved in positive regulation of myoblast differentiation and positive regulation of myotube differentiation. Predicted to be located in cytoplasm. Predicted to be active in nucleus.
Source: NCBI Gene 150572 — RefSeq curated summary.
At a glance
- Gene–disease (curated): hypertrophic cardiomyopathy (Limited, GenCC)
- GWAS associations: 2
- Clinical variants (ClinVar): 110 total
- Druggable target: yes
- MANE Select transcript:
NM_198274
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:20986 |
| Approved symbol | SMYD1 |
| Name | SET and MYND domain containing 1 |
| Location | 2p11.2 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | BOP, ZMYND22, KMT3D |
| Ensembl gene | ENSG00000115593 |
| Ensembl biotype | protein_coding |
| OMIM | 606846 |
| Entrez | 150572 |
Gene structure
Transcript identifiers
Ensembl transcripts: 16 — 15 protein_coding, 1 protein_coding_CDS_not_defined
ENST00000419482, ENST00000438570, ENST00000444564, ENST00000468008, ENST00000891941, ENST00000891942, ENST00000891943, ENST00000965772, ENST00000965773, ENST00000965774, ENST00000965775, ENST00000965776, ENST00000965777, ENST00000965778, ENST00000965779, ENST00000965780
RefSeq mRNA: 2 — MANE Select: NM_198274
NM_001330364, NM_198274
CCDS: CCDS33240, CCDS82480
Canonical transcript exons
ENST00000419482 — 10 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001011455 | 88103058 | 88103150 |
| ENSE00001011458 | 88106325 | 88106488 |
| ENSE00001076273 | 88096595 | 88096784 |
| ENSE00001076275 | 88091012 | 88091142 |
| ENSE00001286663 | 88093517 | 88093555 |
| ENSE00001505800 | 88108371 | 88108539 |
| ENSE00001639454 | 88110354 | 88113384 |
| ENSE00001750433 | 88067825 | 88068001 |
| ENSE00003475280 | 88087862 | 88088075 |
| ENSE00003535684 | 88084316 | 88084492 |
Expression profiles
Bgee: expression breadth ubiquitous, 145 present calls, max score 99.46.
FANTOM5 (CAGE): breadth tissue_specific, TPM avg 2.3780 / max 493.3774, expressed in 142 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 21339 | 1.3954 | 124 |
| 21340 | 0.9567 | 89 |
| 202277 | 0.0259 | 9 |
Top tissues by expression
229 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| left ventricle myocardium | UBERON:0006566 | 99.46 | gold quality |
| vastus lateralis | UBERON:0001379 | 99.11 | gold quality |
| deltoid | UBERON:0001476 | 98.98 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 98.74 | gold quality |
| tibialis anterior | UBERON:0001385 | 98.70 | gold quality |
| quadriceps femoris | UBERON:0001377 | 98.68 | gold quality |
| biceps brachii | UBERON:0001507 | 98.63 | gold quality |
| skeletal muscle tissue | UBERON:0001134 | 98.58 | gold quality |
| skeletal muscle tissue of biceps brachii | UBERON:0004502 | 98.57 | gold quality |
| myocardium | UBERON:0002349 | 98.47 | gold quality |
| heart right ventricle | UBERON:0002080 | 98.45 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 98.24 | gold quality |
| cardiac muscle of right atrium | UBERON:0003379 | 97.97 | gold quality |
| gastrocnemius | UBERON:0001388 | 97.89 | gold quality |
| apex of heart | UBERON:0002098 | 97.78 | gold quality |
| cardiac ventricle | UBERON:0002082 | 96.88 | gold quality |
| heart left ventricle | UBERON:0002084 | 96.86 | gold quality |
| muscle of leg | UBERON:0001383 | 95.93 | gold quality |
| body of tongue | UBERON:0011876 | 95.43 | gold quality |
| muscle tissue | UBERON:0002385 | 95.22 | gold quality |
| cardiac atrium | UBERON:0002081 | 94.57 | gold quality |
| right atrium auricular region | UBERON:0006631 | 94.47 | gold quality |
| pancreatic ductal cell | CL:0002079 | 91.81 | silver quality |
| heart | UBERON:0000948 | 90.64 | gold quality |
| tongue | UBERON:0001723 | 89.03 | gold quality |
| muscle layer of sigmoid colon | UBERON:0035805 | 81.73 | gold quality |
| superior surface of tongue | UBERON:0007371 | 81.34 | gold quality |
| pharyngeal mucosa | UBERON:0000355 | 79.14 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 78.82 | gold quality |
| kidney epithelium | UBERON:0004819 | 75.50 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-HCAD-30 | no | 78.16 |
| E-ANND-3 | no | 2.76 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): GRHL3, HDGF, MEF2A, MEF2C, MYOG, SRF
Literature-anchored findings (GeneRIF, showing 11)
- effects of gene mutations on ventricular development (PMID:12858532)
- HDGF functions as a transcriptional repressor of the SMYD1 gene through interaction with the transcriptional corepressor CtBP. (PMID:19162039)
- SMYD1 and G6PD modulation are critical events for miR-206-mediated differentiation of rhabdomyosarcoma. (PMID:25644430)
- SMYD1 serves as an Serum Response Factor-interacting protein, enhances Serum Response Factor DNA binding activity, and is required for endothelial cell migration and tube formation to regulate angiogenesis. (PMID:26799706)
- We present genetic and statistical evidence that the R320Q substitution in SMYD1 underlies an inherited form of the AnWj-negative blood group phenotype. The mechanism by which the mutation leads to this phenotype remains to be determined. (PMID:29956848)
- This novel mutation (c.814T>C/p.F272L) may be the first identified disease-causing mutation of SMYD1 in Hypertrophic cardiomyopathy (HCM) patients worldwide. (PMID:30205637)
- Modulation of chromatin remodeling proteins SMYD1 and SMARCD1 promotes contractile function of human pluripotent stem cell-derived ventricular cardiomyocyte in 3D-engineered cardiac tissues. (PMID:31097748)
- Stability of Smyd1 in endothelial cells is controlled by PML-dependent SUMOylation upon cytokine stimulation. (PMID:33241844)
- The Methyltransferase Smyd1 Mediates LPS-Triggered Up-Regulation of IL-6 in Endothelial Cells. (PMID:34944023)
- Lysine Methyltransferase SMYD1 Regulates Myogenesis via skNAC Methylation. (PMID:37443729)
- Binding Behavior of Human Hepatoma-Derived Growth Factor on SMYD1. (PMID:39091133)
Cross-species orthologs
13 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | smyd1a | ENSDARG00000009280 |
| danio_rerio | smyd1b | ENSDARG00000091253 |
| mus_musculus | Smyd1 | ENSMUSG00000055027 |
| rattus_norvegicus | Smyd1 | ENSRNOG00000006776 |
| drosophila_melanogaster | Smyd3 | FBGN0011566 |
| drosophila_melanogaster | dao | FBGN0028862 |
| drosophila_melanogaster | SmydA-9 | FBGN0030102 |
| drosophila_melanogaster | SmydA-5 | FBGN0033061 |
| drosophila_melanogaster | Smyd4-1 | FBGN0033427 |
| drosophila_melanogaster | Smyd4-2 | FBGN0036282 |
| drosophila_melanogaster | CG18213 | FBGN0038470 |
| drosophila_melanogaster | SmydA-8 | FBGN0053548 |
| caenorhabditis_elegans | set-18 | WBGENE00044070 |
Paralogs (5): SMYD5 (ENSG00000135632), ZMYND15 (ENSG00000141497), SMYD2 (ENSG00000143499), SMYD3 (ENSG00000185420), SMYD4 (ENSG00000186532)
Protein
Protein identifiers
Histone-lysine N-methyltransferase SMYD1 — Q8NB12 (reviewed: Q8NB12)
Alternative names: SET and MYND domain-containing protein 1
All UniProt accessions (3): C9JUP3, E9PHG3, Q8NB12
UniProt curated annotations — full annotation on UniProt →
Function. Methylates histone H3 at ‘Lys-4’ (H3K4me), seems able to perform both mono-, di-, and trimethylation. Acts as a transcriptional repressor. Essential for cardiomyocyte differentiation and cardiac morphogenesis.
Subunit / interactions. Interacts with HDAC1, HDAC2 and HDAC3. Interacts (via MYND-type zinc finger) with NACA isoform skNAC.
Subcellular location. Cytoplasm. Nucleus.
Tissue specificity. Expression seems mostly restricted to heart and skeletal muscle.
Domain organisation. The SET domain is split between the S-sequence (residues 1-49) and the core SET domain (residues 181-258), however the two segments still come together to form a conserved SET domain fold.
Induction. By serum response factor SRF and myogenin. SRF binds to the CArG site and MYOG binds to the E-box element on SMYD1 promoter.
Similarity. Belongs to the class V-like SAM-binding methyltransferase superfamily.
RefSeq proteins (2): NP_001317293, NP_938015* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001214 | SET_dom | Domain |
| IPR002893 | Znf_MYND | Domain |
| IPR011990 | TPR-like_helical_dom_sf | Homologous_superfamily |
| IPR044418 | SMYD1_SET | Domain |
| IPR046341 | SET_dom_sf | Homologous_superfamily |
| IPR050869 | H3K4_H4K5_MeTrfase | Family |
Pfam: PF00856, PF01753
Catalyzed reactions (Rhea), 1 shown:
- L-lysyl(4)-[histone H3] + 3 S-adenosyl-L-methionine = N(6),N(6),N(6)-trimethyl-L-lysyl(4)-[histone H3] + 3 S-adenosyl-L-homocysteine + 3 H(+) (RHEA:60260)
UniProt features (20 total): binding site 16, chain 1, domain 1, sequence variant 1, zinc finger region 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q8NB12-F1 | 93.07 | 0.87 |
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 (16): 86; 90; 135; 205–206; 208; 270–272; 274; 276; 279; 17–19; 52; 55 …
Function
Pathways and Gene Ontology
Reactome pathways
2 pathways
| ID | Pathway |
|---|---|
| R-HSA-9733709 | Cardiogenesis |
| R-HSA-1266738 | Developmental Biology |
MSigDB gene sets: 123 (showing top):
GSE18804_SPLEEN_MACROPHAGE_VS_COLON_TUMORAL_MACROPHAGE_DN, GOBP_POSITIVE_REGULATION_OF_MYOTUBE_DIFFERENTIATION, GOBP_MUSCLE_TISSUE_DEVELOPMENT, GOBP_POSITIVE_REGULATION_OF_MUSCLE_CELL_DIFFERENTIATION, GOBP_STRIATED_MUSCLE_CELL_DIFFERENTIATION, GOBP_REGULATION_OF_STRIATED_MUSCLE_CELL_DIFFERENTIATION, CAGCTG_AP4_Q5, GOBP_REGULATION_OF_MYOBLAST_DIFFERENTIATION, GOBP_MUSCLE_STRUCTURE_DEVELOPMENT, GOBP_POSITIVE_REGULATION_OF_CELL_DIFFERENTIATION, GOBP_REGULATION_OF_MUSCLE_CELL_DIFFERENTIATION, GOBP_SKELETAL_MUSCLE_ORGAN_DEVELOPMENT, GOBP_MYOBLAST_DIFFERENTIATION, NKX25_01, GOBP_REGULATION_OF_MYOTUBE_DIFFERENTIATION
GO Biological Process (7): heart development (GO:0007507), positive regulation of myotube differentiation (GO:0010831), methylation (GO:0032259), skeletal muscle cell differentiation (GO:0035914), positive regulation of myoblast differentiation (GO:0045663), chromatin remodeling (GO:0006338), negative regulation of DNA-templated transcription (GO:0045892)
GO Molecular Function (9): DNA binding (GO:0003677), transcription corepressor activity (GO:0003714), zinc ion binding (GO:0008270), histone H3K4 trimethyltransferase activity (GO:0140999), protein binding (GO:0005515), methyltransferase activity (GO:0008168), transferase activity (GO:0016740), histone H3K4 methyltransferase activity (GO:0042800), metal ion binding (GO:0046872)
GO Cellular Component (2): nucleus (GO:0005634), cytoplasm (GO:0005737)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Developmental Biology | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| animal organ development | 1 |
| circulatory system development | 1 |
| regulation of myotube differentiation | 1 |
| myotube differentiation | 1 |
| positive regulation of striated muscle cell differentiation | 1 |
| metabolic process | 1 |
| skeletal muscle tissue development | 1 |
| cell differentiation | 1 |
| myoblast differentiation | 1 |
| positive regulation of cell differentiation | 1 |
| regulation of myoblast differentiation | 1 |
| chromatin organization | 1 |
| DNA-templated transcription | 1 |
| regulation of DNA-templated transcription | 1 |
| negative regulation of RNA biosynthetic process | 1 |
| nucleic acid binding | 1 |
| transcription coregulator activity | 1 |
| negative regulation of DNA-templated transcription | 1 |
| transition metal ion binding | 1 |
| histone H3K4 methyltransferase activity | 1 |
| binding | 1 |
| transferase activity, transferring one-carbon groups | 1 |
| catalytic activity | 1 |
| protein-lysine N-methyltransferase activity | 1 |
| histone H3 methyltransferase activity | 1 |
| cation binding | 1 |
| intracellular membrane-bounded organelle | 1 |
| intracellular anatomical structure | 1 |
| cellular anatomical structure | 1 |
Protein interactions and networks
STRING
1973 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| SMYD1 | IRX5 | P78411 | 790 |
| SMYD1 | IRX1 | P78414 | 786 |
| SMYD1 | HAND2 | P61296 | 785 |
| SMYD1 | SMYD5 | Q6GMV2 | 769 |
| SMYD1 | A0A3B3ITS8 | A0A3B3ITS8 | 769 |
| SMYD1 | E9PD41 | E9PD41 | 762 |
| SMYD1 | KCND2 | Q9NZV8 | 737 |
| SMYD1 | TTN | Q8WZ42 | 588 |
| SMYD1 | DEAF1 | O75398 | 558 |
| SMYD1 | IRX3 | P78415 | 551 |
| SMYD1 | IRX6 | P78412 | 533 |
| SMYD1 | SETD7 | Q8WTS6 | 513 |
| SMYD1 | UBOX5 | O94941 | 505 |
| SMYD1 | IRX2 | Q9BZI1 | 501 |
| SMYD1 | UNC45B | Q8IWX7 | 500 |
IntAct
132 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| BHLHE40 | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.830 |
| SMYD1 | ADSS2 | psi-mi:“MI:0914”(association) | 0.780 |
| ADSS2 | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.780 |
| SMYD1 | ZBTB44 | psi-mi:“MI:0915”(physical association) | 0.740 |
| ZBTB44 | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.740 |
| SMYD1 | UTP14A | psi-mi:“MI:0915”(physical association) | 0.670 |
| SMYD1 | FAM204A | psi-mi:“MI:0915”(physical association) | 0.670 |
| FAM204A | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.670 |
| UTP14A | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.670 |
| HOMEZ | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| SMYD1 | HOMEZ | psi-mi:“MI:0915”(physical association) | 0.560 |
| SMYD1 | DISC1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| SMYD1 | KRT35 | psi-mi:“MI:0915”(physical association) | 0.560 |
| SMYD1 | BACH2 | psi-mi:“MI:0915”(physical association) | 0.560 |
| SMYD1 | ZBTB3 | psi-mi:“MI:0915”(physical association) | 0.560 |
| USP54 | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| NEFL | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| POU6F2 | SMYD1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| SMYD1 | psi-mi:“MI:0915”(physical association) | 0.560 |
BioGRID (67): SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SCRN3 (Affinity Capture-MS), ADSS (Affinity Capture-MS), SPSB3 (Affinity Capture-MS), BHLHE40 (Two-hybrid), HOMEZ (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid), SMYD1 (Two-hybrid)
ESM2 similar proteins: A0A1L7TZE5, A0A559KX76, A1C7E4, A1CS00, A1DHW6, A2QCU8, A6SDQ3, A7F045, B0XTS1, B2WKR4, B6Q4Z5, B8M7Q5, B8NGT5, O22781, O43463, O54864, P0CY36, P93025, P97443, Q00659, Q0CY32, Q0E908, Q0VD24, Q28CQ7, Q2NL30, Q2UES9, Q2UFN8, Q32PH7, Q4IJ84, Q4R3E0, Q4WVM1, Q4X0A9, Q5BHD6, Q5E9N5, Q5F3W5, Q5I0M0, Q5PP37, Q5RB81, Q60649, Q6DGD3
Diamond homologs: A9CPT4, C3RZA1, D3ZKV9, E1C5V0, F1QN74, F1RET2, O74467, P97443, Q0P585, Q12529, Q3TYX3, Q4VC12, Q5BJI7, Q5F3V0, Q5R5X9, Q5RGL7, Q5UNT8, Q5ZIZ2, Q6C9E7, Q6GMV2, Q6GN68, Q6GPQ4, Q7M6Z3, Q7TSV3, Q7ZXV5, Q8BTK5, Q8IYR2, Q8NB12, Q8R5A0, Q91YE3, Q96E35, Q9BXT4, Q9CQG3, Q9CWR2, Q9D5Z5, Q9GZT9, Q9H7B4, Q9N3Q8, Q9NRG4, A3M0J3
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
110 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 99 |
| Likely benign | 4 |
| Benign | 3 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
1583 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 2:88067999:CAGG:C | donor_loss | 1.0000 |
| 2:88068000:AGGT:A | donor_loss | 1.0000 |
| 2:88084311:TCCA:T | acceptor_loss | 1.0000 |
| 2:88084312:CCA:C | acceptor_loss | 1.0000 |
| 2:88084314:A:AG | acceptor_gain | 1.0000 |
| 2:88084315:G:GA | acceptor_gain | 1.0000 |
| 2:88084315:GC:G | acceptor_gain | 1.0000 |
| 2:88084315:GCC:G | acceptor_gain | 1.0000 |
| 2:88084315:GCCT:G | acceptor_gain | 1.0000 |
| 2:88084315:GCCTT:G | acceptor_gain | 1.0000 |
| 2:88084490:CAGG:C | donor_loss | 1.0000 |
| 2:88084491:AGG:A | donor_loss | 1.0000 |
| 2:88084493:G:GA | donor_loss | 1.0000 |
| 2:88084494:T:A | donor_loss | 1.0000 |
| 2:88087859:CAGG:C | acceptor_loss | 1.0000 |
| 2:88087860:A:AG | acceptor_gain | 1.0000 |
| 2:88087860:AGGCT:A | acceptor_gain | 1.0000 |
| 2:88087861:G:GG | acceptor_gain | 1.0000 |
| 2:88087861:GGCT:G | acceptor_gain | 1.0000 |
| 2:88087861:GGCTG:G | acceptor_gain | 1.0000 |
| 2:88088051:G:GG | donor_gain | 1.0000 |
| 2:88088071:GAGTG:G | donor_gain | 1.0000 |
| 2:88088073:GTG:G | donor_gain | 1.0000 |
| 2:88088076:G:GG | donor_gain | 1.0000 |
| 2:88088076:GTAG:G | donor_loss | 1.0000 |
| 2:88088077:T:G | donor_loss | 1.0000 |
| 2:88091139:GCAA:G | donor_gain | 1.0000 |
| 2:88091143:G:GG | donor_gain | 1.0000 |
| 2:88103056:A:AG | acceptor_gain | 1.0000 |
| 2:88103057:G:GT | acceptor_gain | 1.0000 |
AlphaMissense
3298 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 2:88084332:T:C | C52R | 1.000 |
| 2:88084371:T:C | C65R | 1.000 |
| 2:88084446:T:C | C90R | 1.000 |
| 2:88108423:G:T | G400W | 1.000 |
| 2:88108424:G:A | G400E | 1.000 |
| 2:88108459:G:T | G412W | 1.000 |
| 2:88067992:T:A | V43D | 0.999 |
| 2:88084333:G:A | C52Y | 0.999 |
| 2:88084334:C:G | C52W | 0.999 |
| 2:88084343:C:G | C55W | 0.999 |
| 2:88084371:T:A | C65S | 0.999 |
| 2:88084372:G:A | C65Y | 0.999 |
| 2:88084372:G:C | C65S | 0.999 |
| 2:88084373:T:G | C65W | 0.999 |
| 2:88084380:T:A | C68S | 0.999 |
| 2:88084380:T:C | C68R | 0.999 |
| 2:88084381:G:C | C68S | 0.999 |
| 2:88084399:G:A | C74Y | 0.999 |
| 2:88084410:T:C | C78R | 0.999 |
| 2:88084411:G:A | C78Y | 0.999 |
| 2:88084412:C:G | C78W | 0.999 |
| 2:88084446:T:A | C90S | 0.999 |
| 2:88084447:G:C | C90S | 0.999 |
| 2:88084448:T:G | C90W | 0.999 |
| 2:88087864:T:C | L106P | 0.999 |
| 2:88091063:G:C | G194R | 0.999 |
| 2:88091064:G:A | G194D | 0.999 |
| 2:88091064:G:T | G194V | 0.999 |
| 2:88091070:G:A | G196D | 0.999 |
| 2:88091105:T:C | C208R | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000028130 (2:88092766 G>A), RS1000130382 (2:88078666 C>G), RS1000153539 (2:88094918 C>G), RS1000162538 (2:88098579 A>G), RS1000194232 (2:88080576 G>A), RS1000214551 (2:88098935 A>G), RS1000441322 (2:88093038 G>C), RS1000449397 (2:88069020 C>A,G), RS1000476231 (2:88078964 G>A), RS1000542414 (2:88089838 C>T), RS1000572770 (2:88083737 T>C), RS1000637077 (2:88075857 T>C), RS1000678241 (2:88089501 T>C), RS1000728808 (2:88104397 G>A,C,T), RS1000757199 (2:88096401 C>T)
Disease associations
OMIM: gene MIM:606846 | disease phenotypes:
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| hypertrophic cardiomyopathy | Limited | Autosomal dominant |
Mondo (1): hypertrophic cardiomyopathy (MONDO:0005045)
Orphanet (0):
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
2 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST003542_178 | Night sleep phenotypes | 3.000000e-08 |
| GCST009959_14 | Retinal detachment or retinal break | 3.000000e-06 |
EFO canonical traits (1, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0010698 | retinal break |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D002312 | Cardiomyopathy, Hypertrophic | C14.280.238.100; C14.280.484.048.750.070.160 |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL5465333 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
10 total (human), top 10 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| bisphenol A | increases expression | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| incobotulinumtoxinA | decreases expression | 1 |
| Sunitinib | decreases expression | 1 |
| Benzo(a)pyrene | increases methylation | 1 |
| Doxorubicin | decreases expression | 1 |
| Estradiol | affects binding, increases reaction | 1 |
| Folic Acid | increases expression | 1 |
| Triclosan | decreases expression | 1 |
| Valproic Acid | increases expression | 1 |
ChEMBL screening assays
3 unique, capped per target: 3 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL5318657 | Binding | Inhibition of SMYD1 (unknown origin) at 50 uM | Structure-Activity Relationship Studies of Venglustat on NTMT1 Inhibition. — J Med Chem |
Clinical trials (associated diseases)
227 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00879060 | PHASE4 | COMPLETED | Clinical and Therapeutic Implications of Fibrosis in Hypertrophic Cardiomyopathy |
| NCT01721967 | PHASE4 | COMPLETED | Ranolazine for the Treatment of Chest Pain in HCM Patients |
| NCT02948998 | PHASE4 | UNKNOWN | Evaluating the Effect of Spironolactone on Hypertrophic Cardiomyopathy |
| NCT03249272 | PHASE4 | TERMINATED | Microvascular Dysfunction in Nonischemic Cardiomyopathy: Insights From CMR Assessment of Coronary Flow Reserve |
| NCT04133532 | PHASE4 | COMPLETED | Effect of Metoprolol in Post Alcohol Septal Ablation Patients With Hypertrophic Cardiomyopathy |
| NCT06401343 | PHASE4 | RECRUITING | Use of SGLT2i in noHCM With HFpEF |
| NCT07103655 | PHASE4 | NOT_YET_RECRUITING | The Therapeutic Value of Mavacamten in Hypertrophic Cardiomyopathy With Mid-to-Apical Left Ventricular Obstruction |
| NCT07600177 | PHASE4 | RECRUITING | Mavacamten to Aficamten Transition in Patients With Obstructive Hypertrophic Cardiomyopathy |
| NCT00317967 | PHASE3 | COMPLETED | Study to Determine if Atorvastatin Reduces Size and Stiffness of Muscle in the Left Ventricle of the Heart |
| NCT00698074 | PHASE3 | UNKNOWN | Diastolic Ventricular Interaction and the Effects of Biventricular Pacing in Hypertrophic Cardiomyopathy |
| NCT00821353 | PHASE3 | COMPLETED | Antiarrhythmic Therapy Versus Catheter Ablation for Atrial Fibrillation in Hypertrophic Cardiomyopathy |
| NCT02431221 | PHASE3 | WITHDRAWN | Efficacy, Safety, and Tolerability of Perhexiline in Subjects With Hypertrophic Cardiomyopathy and Heart Failure |
| NCT03470545 | PHASE3 | COMPLETED | Clinical Study to Evaluate Mavacamten (MYK-461) in Adults With Symptomatic Obstructive Hypertrophic Cardiomyopathy |
| NCT05174416 | PHASE3 | COMPLETED | A Study to Evaluate the Efficacy and Safety of Mavacamten in Chinese Adults With Symptomatic Obstructive HCM |
| NCT05182658 | PHASE3 | ACTIVE_NOT_RECRUITING | Empagliflozin in Hypertrophic Cardiomyopathy |
| NCT05186818 | PHASE3 | COMPLETED | Phase 3 Trial to Evaluate the Efficacy and Safety of Aficamten Compared to Placebo in Adults With Symptomatic oHCM |
| NCT05767346 | PHASE3 | COMPLETED | Phase 3 Trial to Evaluate the Efficacy and Safety of Aficamten Compared to Metoprolol Succinate in Adults With Symptomatic oHCM |
| NCT06116968 | PHASE3 | COMPLETED | An Open-Label Study of Aficamten for Chinese Patients With Symptomatic oHCM |
| NCT06873828 | PHASE3 | NOT_YET_RECRUITING | Evaluation of the Efficacy and Safety of Wearable ECG (AT-Patch) in Patients With Hypertrophic Cardiomyopathy Requiring 48-Hour Holter MonitoringEvaluation of the Efficacy and Safety of Wearable ECG (AT-Patch) in Patients With Hypertrophic Cardiomyopathy Requiring 48-Hour Holter Monitoring |
| NCT07021976 | PHASE3 | RECRUITING | A Phase III Trial of HRS-1893 in Patients With Obstructive Hypertrophic Cardiomyopathy |
| NCT07023341 | PHASE3 | ACTIVE_NOT_RECRUITING | A Study to Learn More About How Well Aficamten Works in Japanese Participants With Symptomatic Obstructive Hypertrophic Cardiomyopathy |
| NCT07202897 | PHASE3 | NOT_YET_RECRUITING | LA-HCM Study : Rivaroxaban for Antithrombotic Prevention in Hypertrophic Cardiomyopathy Patients With Abnormal Left Atrial Strain. |
| NCT00001631 | PHASE2 | COMPLETED | Study of Blood Flow in Heart Muscle |
| NCT00001894 | PHASE2 | COMPLETED | A Comparison of Two Treatments: Pacemaker and Percutaneous Transluminal Septal Ablation for Hypertrophic Cardiomyopathy |
| NCT00001960 | PHASE2 | COMPLETED | Studying the Effectiveness of Pacemaker Therapy in Children Who Have Thickened Heart Muscle |
| NCT00011076 | PHASE2 | COMPLETED | Pirfenidone to Treat Hypertrophic Cardiomyopathy |
| NCT00035386 | PHASE2 | COMPLETED | Alcohol Septal Ablation in Obstructive Hypertrophic Cardiomyopathy: A Pilot Study |
| NCT00430833 | PHASE2 | UNKNOWN | CHANCE - Candesartan in Hypertrophic Cardiomyopathy |
| NCT00500552 | PHASE2 | COMPLETED | Perhexiline Therapy in Patients With Hypertrophic Cardiomyopathy |
| NCT01150461 | PHASE2 | COMPLETED | Effect of Losartan in Patients With Nonobstructive Hypertrophic Cardiomyopathy |
| NCT01230918 | PHASE2 | TERMINATED | Study to Develop a Non-invasive Marker for Monitoring Myocardial Fibrosis |
| NCT01447654 | PHASE2 | COMPLETED | Inhibition of the Renin Angiotensin System With Losartan in Patients With Hypertrophic Cardiomyopathy |
| NCT01696370 | PHASE2 | UNKNOWN | Trimetazidine Therapy in Hypertrophic Cardiomyopathy |
| NCT01912534 | PHASE2 | COMPLETED | Valsartan for Attenuating Disease Evolution In Early Sarcomeric HCM |
| NCT02590809 | PHASE2 | COMPLETED | Hypertrophic Cardiomyopathy Symptom Release by BX1514M |
| NCT03496168 | PHASE2 | COMPLETED | Extension Study of Mavacamten (MYK-461) in Adults With Symptomatic Obstructive Hypertrophic Cardiomyopathy Previously Enrolled in PIONEER |
| NCT03532802 | PHASE2 | COMPLETED | The Effect of Metoprolol in Patients With Hypertrophic Obstructive Cardiomyopathy. |
| NCT03832660 | PHASE2 | COMPLETED | Sacubitril/Valsartan vs Lifestyle in Hypertrophic Cardiomyopathy |
| NCT04219826 | PHASE2 | COMPLETED | Dose-finding Study to Evaluate the Safety, Tolerability, Pharmacokinetics, and Pharmacodynamics of CK-3773274 in Adults With Hypertrophic Cardiomyopathy |
| NCT04426578 | PHASE2 | UNKNOWN | Role of Perhexiline in Hypertrophic Cardiomyopathy |
Related Atlas pages
- Associated diseases: hypertrophic cardiomyopathy
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): hypertrophic cardiomyopathy, retinal detachment