Hacl1 2-hydroxyacyl-CoA lyase 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hacl1provided by RGD
Official Full Name: 2-hydroxyacyl-CoA lyase 1provided by RGD
Primary source: RGD:619849
See related: EnsemblRapid:ENSRNOG00000019630 AllianceGenome:RGD:619849
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
Also known as: Hpcl2; Phyh2
Summary: Enables carbon-carbon lyase activity and thiamine pyrophosphate binding activity. Involved in fatty acid alpha-oxidation and methyl-branched fatty acid metabolic process. Located in peroxisome. Orthologous to human HACL1 (2-hydroxyacyl-CoA lyase 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Liver (RPKM 566.1), Kidney (RPKM 258.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 16p16

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (6831293..6869410, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (6826881..6863027, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (7720047..7758119, complement)

Chromosome 16 - NC_086034.1 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: 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?

2-hydroxyphytanoyl-CoA lyase has a role in the breakdown of long chain 2-hydroxyfatty acids
Title: Breakdown of 2-hydroxylated straight chain fatty acids via peroxisomal 2-hydroxyphytanoyl-CoA lyase: a revised pathway for the alpha-oxidation of straight chain fatty acids.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 2-hydroxyacyl-CoA lyase activity	IEA Inferred from Electronic Annotation more info
enables 2-hydroxyacyl-CoA lyase activity	ISO Inferred from Sequence Orthology more info
enables 2-hydroxyphytanoyl-CoA lyase activity	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	ISO Inferred from Sequence Orthology more info
enables carbon-carbon lyase activity	IDA Inferred from Direct Assay more info	PubMed
enables carbon-carbon lyase activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables lyase activity	IEA Inferred from Electronic Annotation more info
enables lyase activity	ISO Inferred from Sequence Orthology 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 thiamine pyrophosphate binding	IBA Inferred from Biological aspect of Ancestor more info
enables thiamine pyrophosphate binding	IDA Inferred from Direct Assay more info	PubMed
enables thiamine pyrophosphate binding	IEA Inferred from Electronic Annotation more info
enables thiamine pyrophosphate binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in fatty acid alpha-oxidation	IBA Inferred from Biological aspect of Ancestor more info
involved_in fatty acid alpha-oxidation	IDA Inferred from Direct Assay more info	PubMed
involved_in fatty acid alpha-oxidation	IEA Inferred from Electronic Annotation more info
involved_in fatty acid alpha-oxidation	ISO Inferred from Sequence Orthology more info
involved_in fatty acid metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lipid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in methyl-branched fatty acid metabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in methyl-branched fatty acid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in phytanic acid metabolic process	IEA Inferred from Electronic Annotation more info
involved_in phytanic acid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in phytanic acid metabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein targeting to peroxisome	IEA Inferred from Electronic Annotation more info
involved_in protein targeting to peroxisome	ISO Inferred from Sequence Orthology more info
involved_in protein targeting to peroxisome	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in peroxisome	IBA Inferred from Biological aspect of Ancestor more info
located_in peroxisome	IDA Inferred from Direct Assay more info	PubMed
located_in peroxisome	IEA Inferred from Electronic Annotation more info
located_in peroxisome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: 2-hydroxyacyl-CoA lyase 1

Names: 2-HPCL; 2-hydroxyphytanoyl-CoA lyase; 2-hydroxyphytanoyl-Coenzyme A lyase; phytanoyl-CoA 2-hydroxylase 2; phytanoyl-Coenzyme A 2-hydroxylase 2

NP_445945.1

EC 4.1.2.63

XP_063131860.1

EC 4.1.2.63

XP_063131861.1

EC 4.1.2.63

XP_063131862.1

EC 4.1.2.63

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_053493.1 → NP_445945.1 2-hydroxyacyl-CoA lyase 1

See identical proteins and their annotated locations for NP_445945.1

Status: PROVISIONAL

Source sequence(s)

AJ517469

UniProtKB/Swiss-Prot

Q8CHM7

UniProtKB/TrEMBL

A0A8I6ACR4, A6KFY4

Related

ENSRNOP00000026588.2, ENSRNOT00000026588.5

Conserved Domains (4) summary

cd07035
Location:22 → 175

TPP_PYR_POX_like; Pyrimidine (PYR) binding domain of POX and related proteins

PRK09259
Location:19 → 564

PRK09259; putative oxalyl-CoA decarboxylase; Validated

cd02004
Location:380 → 563

TPP_BZL_OCoD_HPCL; Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL ...

pfam00205
Location:206 → 335

TPP_enzyme_M; Thiamine pyrophosphate enzyme, central domain