hmgcll1 3-hydroxymethyl-3-methylglutaryl-CoA lyase like 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hmgcll1provided by ZNC
Official Full Name: 3-hydroxymethyl-3-methylglutaryl-CoA lyase like 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-080220-15
See related: Ensembl:ENSDARG00000088740 AllianceGenome:ZFIN:ZDB-GENE-080220-15
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zgc:172206
Summary: Predicted to enable hydroxymethylglutaryl-CoA lyase activity and metal ion binding activity. Predicted to be involved in L-leucine catabolic process and ketone body biosynthetic process. Predicted to act upstream of or within lipid metabolic process. Predicted to be located in several cellular components, including cytosol; endoplasmic reticulum; and perinuclear region of cytoplasm. Orthologous to human HMGCLL1 (3-hydroxy-3-methylglutaryl-CoA lyase like 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 13

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (1928305..2029323)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (1796928..1897990)

Chromosome 13 - NC_007124.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables catalytic activity	IEA Inferred from Electronic Annotation more info
enables hydroxymethylglutaryl-CoA lyase activity	IBA Inferred from Biological aspect of Ancestor more info
enables hydroxymethylglutaryl-CoA lyase activity	IEA Inferred from Electronic Annotation more info
enables hydroxymethylglutaryl-CoA lyase activity	ISS Inferred from Sequence or Structural Similarity more info
enables lyase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	ISS Inferred from Sequence or Structural Similarity 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	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lipid metabolic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity 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, cytoplasmic; 3-hydroxymethyl-3-methylglutaryl-CoA lyase-like protein 1; probable 3-hydroxymethyl-3-methylglutaryl-CoA lyase 2

NP_001103870.1

EC 4.1.3.4

XP_021336325.1

EC 4.1.3.4

XP_068069018.1

EC 4.1.3.4

XP_068069019.1

EC 4.1.3.4

XP_068069020.1

EC 4.1.3.4

XP_068069021.1

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_001110400.1 → NP_001103870.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic

See identical proteins and their annotated locations for NP_001103870.1

Status: PROVISIONAL

Source sequence(s)

BC154587

UniProtKB/Swiss-Prot

A8WG57

Related

ENSDARP00000133158.2, ENSDART00000164764.2

Conserved Domains (1) summary

PLN02746
Location:39 → 333

PLN02746; hydroxymethylglutaryl-CoA lyase

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007124.7 Reference GRCz11 Primary Assembly

Range

1928305..2029323

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_068212919.1 → XP_068069020.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X3
XM_068212920.1 → XP_068069021.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X4
XM_068212917.1 → XP_068069018.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X1
XM_068212918.1 → XP_068069019.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X2
XM_021480650.2 → XP_021336325.1 3-hydroxy-3-methylglutaryl-CoA lyase, cytoplasmic isoform X5

UniProtKB/TrEMBL

A0A8M9QNI0

Conserved Domains (1) summary

cl21457
Location:39 → 260

ICL_KPHMT; Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate ...