Hmgcll1 3-hydroxy-3-methylglutaryl-CoA lyase like 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hmgcll1provided by RGD
Official Full Name: 3-hydroxy-3-methylglutaryl-CoA lyase like 1provided by RGD
Primary source: RGD:1565090
See related: EnsemblRapid:ENSRNOG00000011193 AllianceGenome:RGD:1565090
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1565090
Summary: Predicted to enable hydroxymethylglutaryl-CoA lyase activity. Predicted to be involved in ketone body biosynthetic process; leucine catabolic process; and lipid metabolic process. Predicted to be located in membrane and perinuclear region of cytoplasm. Predicted to be active in cytosol and endoplasmic reticulum. Orthologous to human HMGCLL1 (3-hydroxymethyl-3-methylglutaryl-CoA lyase like 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 48.6), Adrenal (RPKM 16.9) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (85637708..85799759)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (76757301..76887300)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (83069837..83204778)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

To evaluate the physiological role of HMGCLL1, recombinant protein was expressed in Pichia pastoris and demonstrated to cleave HMG-CoA to acetoacetate and acetyl-CoA with catalytic and affinity properties comparable with human mitochondrial HMGCL. The available results for COS1 cell expression, as well as endogenous expression in U87 cells, indicate that HMGCLL1 is an extramitochondrial hydroxymethylglutaryl-CoA lyase.
Title: Identification and characterization of an extramitochondrial human 3-hydroxy-3-methylglutaryl-CoA lyase.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables hydroxymethylglutaryl-CoA lyase activity	IBA Inferred from Biological aspect of Ancestor 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 metal ion binding	IEA Inferred from Electronic Annotation more info
enables oxo-acid-lyase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in L-leucine catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ketone body biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ketone body biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in ketone body biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in lipid metabolic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic

Names: 3-hydroxy-3-methylglutaryl-CoA lyase-like protein 1; 3-hydroxymethyl-3-methylglutaryl-CoA lyase L1; 3-hydroxymethyl-3-methylglutaryl-CoA lyase, cytoplasmic; 3-hydroxymethyl-3-methylglutaryl-CoA lyase-like 1; 3-hydroxymethyl-3-methylglutaryl-CoA lyase-like protein 1; 3-hydroxymethyl-3-methylglutaryl-Coenzyme A lyase-like 1

NP_001263401.1

EC 4.1.3.4

XP_006243477.1

EC 4.1.3.4

XP_038937807.1

EC 4.1.3.4

XP_063121955.1

EC 4.1.3.4

XP_063121956.1

EC 4.1.3.4

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)

NM_001276472.3 → NP_001263401.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic

See identical proteins and their annotated locations for NP_001263401.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/Swiss-Prot

D4A5C3

UniProtKB/TrEMBL

A0A8I5ZVC0

Related

ENSRNOP00000014927.3, ENSRNOT00000014926.8

Conserved Domains (1) summary

PLN02746
Location:41 → 336

PLN02746; hydroxymethylglutaryl-CoA lyase

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

NC_086026.1 Reference GRCr8

Range

85637708..85799759

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063265886.1 → XP_063121956.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X3
XM_006243415.5 → XP_006243477.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X2

UniProtKB/TrEMBL

A0A8I5ZVC0

Conserved Domains (1) summary

PLN02746
Location:41 → 294

PLN02746; hydroxymethylglutaryl-CoA lyase
XM_039081879.2 → XP_038937807.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X4

Conserved Domains (1) summary

cl21457
Location:44 → 266

TIM; TIM-like beta/alpha barrel domains
XM_063265885.1 → XP_063121955.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X1

UniProtKB/TrEMBL

A0A8I5ZVC0

Related

ENSRNOP00000112407.1, ENSRNOT00000132426.1