HCSGD entry for PNPT1

1. General information

Official gene symbolPNPT1
Entrez ID87178
Gene full namepolyribonucleotide nucleotidyltransferase 1
Other gene symbolsCOXPD13 DFNB70 OLD35 PNPASE old-35
Links to Entrez GeneLinks to Entrez Gene

2. Neighbors in the network

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This gene isn't in Literature mining network.

3. Gene ontology annotation

GO ID

GO term

Evidence

Category

GO:00001753'-5'-exoribonuclease activityIDA IEAmolecular_function
GO:0000957Mitochondrial RNA catabolic processIDAbiological_process
GO:0000958Mitochondrial mRNA catabolic processIDAbiological_process
GO:0000962Positive regulation of mitochondrial RNA catabolic processIDAbiological_process
GO:0000964Mitochondrial RNA 5'-end processingIMPbiological_process
GO:0000965Mitochondrial RNA 3'-end processingIMPbiological_process
GO:0003723RNA bindingIEAmolecular_function
GO:0004654Polyribonucleotide nucleotidyltransferase activityIDA IEAmolecular_function
GO:0005515Protein bindingIPImolecular_function
GO:0005737CytoplasmIDAcellular_component
GO:0005739MitochondrionIDAcellular_component
GO:0005758Mitochondrial intermembrane spaceIDAcellular_component
GO:0005886Plasma membraneIDAcellular_component
GO:0006396RNA processingIEAbiological_process
GO:0006401RNA catabolic processIDAbiological_process
GO:0006402MRNA catabolic processIDA IEAbiological_process
GO:0008266Poly(U) RNA bindingIDAmolecular_function
GO:0034046Poly(G) bindingIDAmolecular_function
GO:0034599Cellular response to oxidative stressIDAbiological_process
GO:0035198MiRNA bindingIDAmolecular_function
GO:0035458Cellular response to interferon-betaIDAbiological_process
GO:0035927RNA import into mitochondrionIDAbiological_process
GO:0035928RRNA import into mitochondrionIDAbiological_process
GO:0043457Regulation of cellular respirationISSbiological_process
GO:0043631RNA polyadenylationIDAbiological_process
GO:0045025Mitochondrial degradosomeIDAcellular_component
GO:0045926Negative regulation of growthIDAbiological_process
GO:0051260Protein homooligomerizationIDAbiological_process
GO:0061014Positive regulation of mRNA catabolic processIMPbiological_process
GO:0070207Protein homotrimerizationIDAbiological_process
GO:0070584Mitochondrion morphogenesisISSbiological_process
GO:0071042Nuclear polyadenylation-dependent mRNA catabolic processIDAbiological_process
GO:0071850Mitotic cell cycle arrestIDAbiological_process
GO:0090305Nucleic acid phosphodiester bond hydrolysisIDAbiological_process
GO:0090501RNA phosphodiester bond hydrolysisIDAbiological_process
GO:0090503RNA phosphodiester bond hydrolysis, exonucleolyticIDAbiological_process
GO:0097222Mitochondrial mRNA polyadenylationIMPbiological_process
GO:2000627Positive regulation of miRNA catabolic processIDAbiological_process
GO:2000772Regulation of cellular senescenceIDAbiological_process
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4. Expression levels in datasets

  • Meta-analysis result

p-value upp-value downFDR upFDR down
0.29288625430.07953130580.99317947690.5326573791

  • Individual experiment result
    ( "-" represent NA in the specific microarray platform )

Data sourceUp or downLog fold change
GSE11954Up0.2018065115
GSE13712_SHEARUp0.8713290641
GSE13712_STATICUp0.8139471474
GSE19018Down-0.6225162056
GSE19899_A1Up0.1236508630
GSE19899_A2Down-0.1787222591
PubMed_21979375_A1Up0.8097809438
PubMed_21979375_A2Up0.1013526789
GSE35957Down-0.9029902167
GSE36640Down-0.9790038704
GSE54402Up0.2408254901
GSE9593Down-0.6230177007
GSE43922Up0.0075517089
GSE24585Down-0.7032014102
GSE37065Up0.7778881346
GSE28863_A1--
GSE28863_A2--
GSE28863_A3--
GSE28863_A4--
GSE48662Down-0.3631011986

5. Regulation relationships with compounds/drugs/microRNAs

  • Compounds

Not regulated by compounds

  • Drugs

Not regulated by drugs

  • MicroRNAs

  • mirTarBase

MiRNA_name

mirBase ID

miRTarBase ID

Experiment

Support type

References (Pubmed ID)

hsa-miR-155-5pMIMAT0000646MIRT020848ProteomicsFunctional MTI (Weak)18668040
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  • mirRecord
No target information from mirRecord

6. Text-mining results about the gene

Gene occurances in abstracts of cellular senescence-associated articles: 11 abstracts the gene occurs.


PubMed ID of the article

Sentenece the gene occurs

22370639The tumor-suppressive effect of ZNF331 is mediated at least by downregulation of genes involved in cell growth promotion (DSTN, EIF5A, GARS, DDX5, STAM, UQCRFS1 and SET) and migration/invasion (DSTN and ACTR3), and upregulation of genome-stability gene (SSBP1) and cellular senescence gene (PNPT1)
22210891Crystal structure of human polynucleotide phosphorylase: insights into its domain function in RNA binding and degradation
22210891Human polynucleotide phosphorylase (hPNPase) is a 3'-to-5' exoribonuclease that degrades specific mRNA and miRNA, and imports RNA into mitochondria, and thus regulates diverse physiological processes, including cellular senescence and homeostasis
22210891However, the RNA-processing mechanism by hPNPase, particularly how RNA is bound via its various domains, remains obscure
22210891Here, we report the crystal structure of an S1 domain-truncated hPNPase at a resolution of 2
22210891The trimeric hPNPase has a hexameric ring-like structure formed by six RNase PH domains, capped with a trimeric KH pore
22210891Our biochemical and mutagenesis studies suggest that the S1 domain is not critical for RNA binding, and conversely, that the conserved GXXG motif in the KH domain directly participates in RNA binding in hPNPase
22210891Our studies thus provide structural and functional insights into hPNPase, which uses a KH pore to trap a long RNA 3' tail that is further delivered into an RNase PH channel for the degradation process
22210891Structural RNA with short 3' tails are, on the other hand, transported but not digested by hPNPase
18678873In yeast mitochondria, RNA degradation takes place through the coordinated activities of ySuv3 helicase and yDss1 exoribonuclease (mtEXO), whereas in bacteria, RNA is degraded via RNaseE, RhlB, PNPase, and enolase
17983748Human polynucleotide phosphorylase: location matters
17983748Human polynucleotide phosphorylase (hPNPase) is an RNA-processing enzyme induced in response to type I interferons and during terminal differentiation and cellular senescence
17983748Initial studies have also linked hPNPase to tumorigenesis and the cellular response to viral infection
17983748Its surprising localization in the IMS, which is thought to be devoid of mRNA transcripts, raises questions about where and how hPNPase elicits its numerous suggested functions
17983748Here, we discuss recent advances in understanding the various roles of hPNPase both within and potentially outside of the mitochondria
16505900Up-regulation of human PNPase mRNA by beta-interferon has no effect on protein level in melanoma cell lines
16505900Human mitochondrial polynucleotide phosphorylase (hPNPase) is an exoribonuclease localized in mitochondria
16505900Recent studies have revealed the existence of a relationship between induction of hPNPase mRNA and both cellular senescence and growth arrest of melanoma cells following beta-interferon treatment
16505900The aim of this study was to verify whether the augmented hPNPase mRNA level results in increase of the protein level
16505900However, an elevated level of hPNPase protein was observed in interferon-induced HeLa and Jurkat cells
16055741Human polynucleotide phosphorylase (hPNPase(OLD-35)), an evolutionarily conserved 3', 5' exoribonuclease mediating mRNA degradation, was first identified as a predominantly mitochondrial protein overexpressed during terminal differentiation and senescence
15978720Human polynucleotide phosphorylase (hPNPase(old-35)), a RNA degradation enzyme shown to be upregulated during differentiation and cellular senescence, may represent a molecular link between aging and its associated inflammation
15492272Human polynucleotide phosphorylase (hPNPaseold-35): a potential link between aging and inflammation
15492272An overlapping pathway screen identified human polynucleotide phosphorylase (hPNPase(old-35)), an evolutionary conserved 3',5'-exoribonuclease, as a gene up-regulated during both terminal differentiation and cellular senescence
14563561Expression regulation and genomic organization of human polynucleotide phosphorylase, hPNPase(old-35), a Type I interferon inducible early response gene
14563561Sequence and functional analysis indicates that old-35 encodes human polynucleotide phosphorylase, hPNPase(old-35)
14563561To provide insights into PNPase function in vivo, we have also cloned the mouse PNPase(old-35) cDNA, mPNPase(old-35)
12798676Human polynucleotide phosphorylase, hPNPase, is localized in mitochondria
12798676The human gene encoding a polynucleotide phosphorylase (hPNPase) has been recently identified as strongly up-regulated in two processes leading to irreversible arrest of cell division: progeroid senescence and terminal differentiation
12798676Here, we demonstrate that the hPNPase is localized in mitochondria
12473748Identification and cloning of human polynucleotide phosphorylase, hPNPase old-35, in the context of terminal differentiation and cellular senescence
12473748This strategy identified old-35, which encodes an evolutionary conserved gene, human polynucleotide phosphorylase (hPNPase(old-35)), that is regulated predominantly by type I IFNs
12473748Identification of hPNPase(old-35), an IFN-inducible 3'-5' RNA exonuclease, provides additional support for a relationship between IFN action and RNA processing and suggests an important role for this gene in growth control associated with terminal differentiation and cellular senescence
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