Apaf1 apoptotic peptidase activating factor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Apaf1provided by RGD
Official Full Name: apoptotic peptidase activating factor 1provided by RGD
Primary source: RGD:620575
See related: EnsemblRapid:ENSRNOG00000008022 AllianceGenome:RGD:620575
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 heat shock protein binding activity and identical protein binding activity. Involved in several processes, including cardiac muscle cell apoptotic process; cellular response to transforming growth factor beta stimulus; and response to hypoxia. Part of apoptosome. Used to study visual epilepsy. Biomarker of brain ischemia; colon cancer; middle cerebral artery infarction; and muscular atrophy. Orthologous to human APAF1 (apoptotic peptidase activating factor 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 132.8), Thymus (RPKM 83.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q13

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (27381392..27466772, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (25494143..25579540, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (31699309..31784192, complement)

Chromosome 7 - NC_086025.1 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 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?

PTB domain and leucine zipper motif 1 (APPL1) inhibits myocardial ischemia/hypoxia-reperfusion injury via inactivation of apoptotic protease activating factor-1 (APAF-1)/Caspase9 signaling pathway.
Title: PTB domain and leucine zipper motif 1 (APPL1) inhibits myocardial ischemia/hypoxia-reperfusion injury via inactivation of apoptotic protease activating factor-1 (APAF-1)/Caspase9 signaling pathway.
CARD9 protects cardiomyocytes from apoptosis by interacting with Apaf-1 and interfering with apoptosome formation following myocardial ischemia/reperfusion injury in vivo and in vitro
Title: CARD9 inhibits mitochondria-dependent apoptosis of cardiomyocytes under oxidative stress via interacting with Apaf-1.
ZYZ-488 as a novel small molecule competitive inhibitor of Apaf-1, with the great potential for treating cardiac ischemia.
Title: The discovery of a novel inhibitor of apoptotic protease activating factor-1 (Apaf-1) for ischemic heart: synthesis, activity and target identification.
miR-183 was induced in protective postconditioning and reduced reperfusion injury of the livers via the targeting of apoptotic signaling. miR-183 mediated the tolerance induced by iPoC in livers via Apaf-1 repressing.
Title: microRNA-183 Mediates Protective Postconditioning of the Liver by Repressing Apaf-1.
MicroRNA-17-mediated down-regulation of Apaf-1 attenuates apoptosome formation and subsequent apoptosis of cardiomyocytes.
Title: MicroRNA-17-mediated down-regulation of apoptotic protease activating factor 1 attenuates apoptosome formation and subsequent apoptosis of cardiomyocytes.
results provide evidence that Apaf-1 pharmacological inhibition has therapeutic potential for the treatment of apoptosis-related diseases.
Title: Apaf-1 inhibitors protect from unwanted cell death in in vivo models of kidney ischemia and chemotherapy induced ototoxicity.
Chronic hyperglycemia exacerbated apoptosis and exaggerated loss of cytosolic and mitochondrial redox balance, impaired G6PD activity, and enhanced expression of Apaf-1.
Title: Hyperglycemia potentiates carbonyl stress-induced apoptosis in naïve PC-12 cells: relationship to cellular redox and activator protease factor-1 expression.
erythropoietin maintains both genomic DNA integrity and cellular membrane asymmetry through parallel pathways that prevent the induction of Apaf-1 and preserve mitochondrial membrane potential in conjunction with enhanced Bcl-XL expression
Title: Apaf-1, Bcl-xL, cytochrome c, and caspase-9 form the critical elements for cerebral vascular protection by erythropoietin.
Results show that nPC12 transition to dPC12 cells afforded protection against oxidative challenge due to maintenance of reduced GSH/GSSG and decreased Apaf-1 expression.
Title: Decreased susceptibility of differentiated PC12 cells to oxidative challenge: relationship to cellular redox and expression of apoptotic protease activator factor-1.
The subcellular distribution of the apoptosome scaffold protein apoptotic protease-activating factor 1 (Apaf-1) before and after triggering apoptosis in single somatotrophs is reported.
Title: Subcellular localization of Apaf-1 in apoptotic rat pituitary cells.

Submit: New GeneRIF Correction See all GeneRIFs (11)

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ADP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables cysteine-type endopeptidase activator activity involved in apoptotic process	ISO Inferred from Sequence Orthology more info
enables heat shock protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within activation of cysteine-type endopeptidase activity involved in apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in activation of cysteine-type endopeptidase activity involved in apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c	IEA Inferred from Electronic Annotation more info
involved_in activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c	ISO Inferred from Sequence Orthology more info
involved_in apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within brain development	ISO Inferred from Sequence Orthology more info
involved_in cardiac muscle cell apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to transforming growth factor beta stimulus	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within forebrain development	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
involved_in kidney development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within neural tube closure	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of apoptotic DNA fragmentation	ISO Inferred from Sequence Orthology more info
involved_in regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of apoptosome	IDA Inferred from Direct Assay more info	PubMed
part_of apoptosome	IEA Inferred from Electronic Annotation more info
part_of apoptosome	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: apoptotic protease-activating factor 1

Names: apaf-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)

NM_023979.2 → NP_076469.1 apoptotic protease-activating factor 1

See identical proteins and their annotated locations for NP_076469.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

Q9EPV5

UniProtKB/TrEMBL

A6IFU7, Q8VI66

Related

ENSRNOP00000010869.6, ENSRNOT00000010869.8

Conserved Domains (6) summary

COG2319
Location:653 → 1038

WD40; WD40 repeat [General function prediction only]

cd00200
Location:607 → 910

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

cd08323
Location:7 → 92

CARD_APAF1; Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1

pfam00931
Location:129 → 414

NB-ARC; NB-ARC domain

pfam13191
Location:126 → 245

AAA_16; AAA ATPase domain

sd00039
Location:623 → 655

7WD40; WD40 repeat [structural motif]

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_086025.1 Reference GRCr8

Range

27381392..27466772 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008765263.4 → XP_008763485.1 apoptotic protease-activating factor 1 isoform X1

UniProtKB/TrEMBL

A6IFU6

Conserved Domains (4) summary

COG2319
Location:457 → 842

WD40; WD40 repeat [General function prediction only]

cd00200
Location:411 → 714

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

pfam00931
Location:3 → 218

NB-ARC; NB-ARC domain

sd00039
Location:427 → 459

7WD40; WD40 repeat [structural motif]