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smg-5 PIN domain-containing protein [ Caenorhabditis elegans ]

Gene ID: 172391, updated on 23-Nov-2023

Summary

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Gene symbol
smg-5
Gene description
PIN domain-containing protein
Primary source
WormBase:WBGene00004883
Locus tag
CELE_W02D3.8
See related
AllianceGenome:WB:WBGene00004883
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Enables DEAD/H-box RNA helicase binding activity and protein phosphatase 2A binding activity. Involved in embryonic genitalia morphogenesis; ncRNA metabolic process; and negative regulation of gene expression. Located in cytoplasm and nucleus. [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See smg-5 in Genome Data Viewer
Location:
chromosome: I
Exon count:
5
Sequence:
Chromosome: I; NC_003279.8 (6734028..6736161, complement)

Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene ADP/ATP translocase Neighboring gene Fatty acid-binding protein homolog 5 Neighboring gene Dihydroorotate dehydrogenase (quinone), mitochondrial Neighboring gene Cytochrome b5 heme-binding domain-containing protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Stop making nonSense: the C. elegans smg genes. Mango SE. Trends Genet, 2001 Nov. PMID 11672865
  2. An unusual arrangement of two 14-3-3-like domains in the SMG5-SMG7 heterodimer is required for efficient nonsense-mediated mRNA decay. Jonas S, et al. Genes Dev, 2013 Jan 15. PMID 23348841, Free PMC Article
  3. SMG-1 is a phosphatidylinositol kinase-related protein kinase required for nonsense-mediated mRNA Decay in Caenorhabditis elegans. Grimson A, et al. Mol Cell Biol, 2004 Sep. PMID 15314158, Free PMC Article
  4. smg mutants affect the expression of alternatively spliced SR protein mRNAs in Caenorhabditis elegans. Morrison M, et al. Proc Natl Acad Sci U S A, 1997 Sep 2. PMID 9275202, Free PMC Article
  5. Functional analysis of an intron 3' splice site in Caenorhabditis elegans. Zhang H, et al. RNA, 1996 Apr. PMID 8634918, Free PMC Article

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. results suggest that the role of SMG-5 is to direct protein phosphatase 2A to its SMG-2 substrate
    Title: SMG-5, required for C.elegans nonsense-mediated mRNA decay, associates with SMG-2 and protein phosphatase 2A.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables DEAD/H-box RNA helicase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables RNA nuclease activity ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein phosphatase 2A binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein phosphatase regulator activity NAS
Non-traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in embryonic genitalia morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in ncRNA metabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
PIN domain-containing protein
NP_491929.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003279.8 Reference assembly

    Range
    6734028..6736161 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_059528.9 → NP_491929.1  PIN domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_491929.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    G5ECF1
    Conserved Domains (1) summary
    smart00670
    Location:427 → 525
    PINc; Large family of predicted nucleotide-binding domains
Nucleotide Protein
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