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Hmgcl 3-hydroxy-3-methylglutaryl-CoA lyase [ Rattus norvegicus (Norway rat) ]

Gene ID: 79238, updated on 10-Jul-2024

Summary

Official Symbol
Hmgclprovided by RGD
Official Full Name
3-hydroxy-3-methylglutaryl-CoA lyaseprovided by RGD
Primary source
RGD:620554
See related
EnsemblRapid:ENSRNOG00000009422 AllianceGenome:RGD:620554
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Enables carboxylic acid binding activity; fatty-acyl-CoA binding activity; and hydroxymethylglutaryl-CoA lyase activity. Involved in several processes, including acyl-CoA metabolic process; ketone body biosynthetic process; and liver development. Located in mitochondrion. Human ortholog(s) of this gene implicated in amino acid metabolic disorder. Orthologous to human HMGCL (3-hydroxy-3-methylglutaryl-CoA lyase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Liver (RPKM 532.5), Kidney (RPKM 407.5) and 9 other tissues See more
Orthologs
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Genomic context

See Hmgcl in Genome Data Viewer
Location:
5q36
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (153461738..153475552)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (148178203..148192072)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (154294841..154308582)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene cannabinoid receptor 2 Neighboring gene alpha-L-fucosidase 1 Neighboring gene UDP-galactose-4-epimerase Neighboring gene lysophospholipase 2

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

General gene information

Markers

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables carboxylic acid binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables fatty-acyl-CoA binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables hydroxymethylglutaryl-CoA lyase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables hydroxymethylglutaryl-CoA lyase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables hydroxymethylglutaryl-CoA lyase activity IEA
Inferred from Electronic Annotation
more info
 
enables hydroxymethylglutaryl-CoA lyase activity ISO
Inferred from Sequence Orthology
more info
 
enables hydroxymethylglutaryl-CoA lyase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables magnesium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables magnesium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables manganese ion binding IEA
Inferred from Electronic Annotation
more info
 
enables manganese ion binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables structural molecule activity IEA
Inferred from Electronic Annotation
more info
 
enables structural molecule activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in L-leucine catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in acyl-CoA metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in ketone body biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in ketone body biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in ketone body biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in ketone body biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
involved_in lipid metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in lipid metabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in liver development IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in mitochondrion organization IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within mitochondrion organization ISO
Inferred from Sequence Orthology
more info
 
involved_in response to fatty acid IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to nutrient IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to starvation IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
located_in mitochondrial matrix IEA
Inferred from Electronic Annotation
more info
 
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
 
located_in peroxisome IEA
Inferred from Electronic Annotation
more info
 
located_in peroxisome ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex IEA
Inferred from Electronic Annotation
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
hydroxymethylglutaryl-CoA lyase, mitochondrial
Names
3-hydroxy-3-methylglutarate-CoA lyase
3-hydroxy-3-methylglutaryl-Coenzyme A lyase
3-hydroxymethyl-3-methylglutaryl-CoA lyase
3-hydroxymethyl-3-methylglutaryl-Coenzyme A lyase
HL
HMG-CoA lyase
NP_077362.1
XP_038966760.1
XP_063144533.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_024386.2NP_077362.1  hydroxymethylglutaryl-CoA lyase, mitochondrial precursor

    See identical proteins and their annotated locations for NP_077362.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/Swiss-Prot
    P97519
    UniProtKB/TrEMBL
    A0A8L2Q6E3, A6IT78
    Related
    ENSRNOP00000012853.5, ENSRNOT00000012853.8
    Conserved Domains (1) summary
    cl21457
    Location:17325
    TIM; TIM-like beta/alpha barrel domains

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086023.1 Reference GRCr8

    Range
    153461738..153475552
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039110832.2XP_038966760.1  hydroxymethylglutaryl-CoA lyase, mitochondrial isoform X1

    Conserved Domains (1) summary
    cl21457
    Location:17257
    TIM; TIM-like beta/alpha barrel domains
  2. XM_063288463.1XP_063144533.1  hydroxymethylglutaryl-CoA lyase, mitochondrial isoform X2