Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
3155
Gene name Gene Name - the full gene name approved by the HGNC.
3-hydroxy-3-methylglutaryl-CoA lyase
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.
HMGCL
Synonyms (NCBI Gene) Gene synonyms aliases
HL, HMGCL1
Chromosome Chromosome number
1
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
1p36.11
Summary Summary of gene provided in NCBI Entrez Gene.
The protein encoded by this gene belongs to the HMG-CoA lyase family. It is a mitochondrial enzyme that catalyzes the final step of leucine degradation and plays a key role in ketone body formation. Mutations in this gene are associated with HMG-CoA lyase
SNPs SNP information provided by dbSNP.
SNP ID Visualize variation Clinical significance Consequence
rs112508527 A>C,G,T Likely-benign, likely-pathogenic Synonymous variant, stop gained, coding sequence variant, intron variant
rs121964997 C>T Pathogenic Missense variant, coding sequence variant
rs121964998 C>T Pathogenic Missense variant, coding sequence variant
rs200189529 G>A,C Likely-pathogenic, likely-benign Stop gained, intron variant, coding sequence variant, synonymous variant
rs568718845 T>C Likely-pathogenic, uncertain-significance Intron variant
miRNA miRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT044352 hsa-miR-106b-5p CLASH 23622248
MIRT2011329 hsa-miR-1976 CLIP-seq
MIRT2011330 hsa-miR-3160-5p CLIP-seq
MIRT2011331 hsa-miR-4268 CLIP-seq
MIRT2011332 hsa-miR-4722-3p CLIP-seq
Gene ontology (GO) Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0000062 Function Fatty-acyl-CoA binding IEA
GO:0000287 Function Magnesium ion binding IDA 9200711
GO:0001889 Process Liver development IEA
GO:0004419 Function Hydroxymethylglutaryl-CoA lyase activity IBA 21873635
GO:0004419 Function Hydroxymethylglutaryl-CoA lyase activity IDA 8027038, 8670134, 9200711, 9869651, 12464283, 22847177, 22865860
Other IDs Other ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM HGNC e!Ensembl
613898 5005 ENSG00000117305
Protein
UniProt ID P35914
Protein name Hydroxymethylglutaryl-CoA lyase, mitochondrial (HL) (HMG-CoA lyase) (EC 4.1.3.4) (3-hydroxy-3-methylglutarate-CoA lyase)
Protein function Mitochondrial 3-hydroxy-3-methylglutaryl-CoA lyase that catalyzes a cation-dependent cleavage of (S)-3-hydroxy-3-methylglutaryl-CoA into acetyl-CoA and acetoacetate, a key step in ketogenesis. Terminal step in leucine catabolism. Ketone bodies (
PDB 2CW6 , 3MP3 , 3MP4 , 3MP5
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00682 HMGL-like 32 306 HMGL-like Domain
Tissue specificity TISSUE SPECIFICITY: Highest expression in liver. Expressed in pancreas, kidney, intestine, testis, fibroblasts and lymphoblasts. Very low expression in brain and skeletal muscle. The relative expression of isoform 2 (at mRNA level) is highest in heart (30
Sequence
Sequence length 325
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG   Reactome
  Valine, leucine and isoleucine degradation
Butanoate metabolism
Metabolic pathways
Peroxisome
  Synthesis of Ketone Bodies
Peroxisomal protein import
Associated diseases Disease information provided by ClinVar, GenCC, and GWAS databases.
Causal
Disease term Disease name dbSNP ID References
Anemia Anemia rs118204044, rs118204045, rs118204046, rs121918330, rs869320719, rs869312029, rs121918332, rs869320724, rs767094129, rs786205058, rs786205059, rs137853119, rs137853120, rs137853121, rs1384933966
View all (89 more)
Cardiomyopathy Cardiomyopathy, Dilated rs267607003, rs267607002, rs267607004, rs63750743, rs121908333, rs121908334, rs104894655, rs121434420, rs121434421, rs193922674, rs111517471, rs121908987, rs193922384, rs121909374, rs121909377
View all (900 more)
Deficiency of hydroxymethylglutaryl-coa lyase Hydroxymethylglutaric aciduria rs752137615, rs121964997, rs121964998, rs786205431, rs727503963, rs763494292, rs760106433, rs764264834, rs1212444447, rs1553132209, rs200189529, rs890995574, rs1553133042, rs1302190999, rs1425615804
View all (10 more)
3128690, 8617516, 19177531, 20532825, 28583327, 23861731, 9817922, 8440722
Epileptic encephalopathy Encephalopathies rs587776508, rs121918334, rs121918317, rs121918321, rs74315390, rs28939684, rs74315391, rs74315392, rs118192244, rs121918622, rs121918623, rs121917953, rs121917955, rs121918624, rs121918625
View all (860 more)
Unknown
Disease term Disease name Evidence References Source
Pancreatitis Acute pancreatitis ClinVar
Anxiety Disorder Anxiety Disorder GWAS
Associations from Text Mining
Disease Name Relationship Type References
3 Hydroxy 3 Methylglutaryl CoA Lyase Deficiency Associate 12874287, 17173698, 20532825, 32059735, 8798725
3 Hydroxy 3 Methylglutaryl CoA Lyase Deficiency Inhibit 17173698
Colonic Neoplasms Associate 34564978
Genetic Diseases Inborn Associate 16330546
Glioblastoma Stimulate 38069906
Glioma Associate 38069906
Hypoglycemia Associate 16330546
Leukemia Hairy Cell Stimulate 26145173
Melanoma Stimulate 26145173
Metabolic Diseases Associate 16330546