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Aliases for SMG5 Gene

Aliases for SMG5 Gene

  • SMG5 Nonsense Mediated MRNA Decay Factor 2 3
  • EST1B 3 4 6
  • LPTS-Interacting Protein 3 4
  • EST1-Like Protein B 3 4
  • LPTS-RP1 3 4
  • KIAA1089 4 6
  • HSMG-5 3 4
  • Smg-5 Homolog, Nonsense Mediated MRNA Decay Factor (C. Elegans) 2
  • EST1 Telomerase Component Homolog B (S. Cerevisiae) 2
  • Smg-5 Homolog, Nonsense Mediated MRNA Decay Factor 3
  • EST1 Telomerase Component Homolog B 3
  • Ever Shorter Telomeres 1B 3
  • LPTS Interacting Protein 3
  • Est1p-Like Protein B 3
  • SMG-5 Homolog 4
  • Protein SMG5 3
  • RP11-54H19.7 3
  • LPTSRP1 3
  • SMG-5 3

External Ids for SMG5 Gene

Summaries for SMG5 Gene

Entrez Gene Summary for SMG5 Gene

  • SMG5 is involved in nonsense-mediated mRNA decay (Ohnishi et al., 2003 [PubMed 14636577]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SMG5 Gene

SMG5 (SMG5 Nonsense Mediated MRNA Decay Factor) is a Protein Coding gene. Among its related pathways are Gene Expression and Regulation of Telomerase. GO annotations related to this gene include protein phosphatase 2A binding. An important paralog of this gene is SMG7.

UniProtKB/Swiss-Prot for SMG5 Gene

  • Plays a role in nonsense-mediated mRNA decay. Does not have RNase activity by itself. Promotes dephosphorylation of UPF1. Together with SMG7 is thought to provide a link to the mRNA degradation machinery involving exonucleolytic pathways, and to serve as an adapter for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. Necessary for TERT activity.

Gene Wiki entry for SMG5 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMG5 Gene

Genomics for SMG5 Gene

Genomic Location for SMG5 Gene

Start:
156,249,224 bp from pter
End:
156,286,655 bp from pter
Size:
37,432 bases
Orientation:
Minus strand

Genomic View for SMG5 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SMG5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMG5 Gene

Regulatory Elements for SMG5 Gene

Proteins for SMG5 Gene

  • Protein details for SMG5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPR3-SMG5_HUMAN
    Recommended name:
    Protein SMG5
    Protein Accession:
    Q9UPR3
    Secondary Accessions:
    • D3DVB7
    • Q5QJE7
    • Q659C7
    • Q8IXC0
    • Q8IY09
    • Q96IJ7

    Protein attributes for SMG5 Gene

    Size:
    1016 amino acids
    Molecular mass:
    113928 Da
    Quaternary structure:
    • Interacts with TERT, PPP2CA and SMG1. Part of a complex that contains SMG1, SMG5, SMG7, PPP2CA, a short isoform of UPF3A (isoform UPF3AS, but not isoform UPF3AL) and phosphorylated UPF1. Not detected in complexes that contain unphosphorylated UPF1.
    SequenceCaution:
    • Sequence=BAA83041.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SMG5 Gene

neXtProt entry for SMG5 Gene

Proteomics data for SMG5 Gene at MOPED

Post-translational modifications for SMG5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SMG5 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for SMG5 Gene

Domains for SMG5 Gene

Protein Domains for SMG5 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SMG5 Gene

Graphical View of Domain Structure for InterPro Entry

Q9UPR3

UniProtKB/Swiss-Prot:

SMG5_HUMAN
Domain:
  • Contains 1 PINc domain.:
    • Q9UPR3
genes like me logo Genes that share domains with SMG5: view

No data available for Gene Families for SMG5 Gene

Function for SMG5 Gene

Molecular function for SMG5 Gene

UniProtKB/Swiss-Prot Function: Plays a role in nonsense-mediated mRNA decay. Does not have RNase activity by itself. Promotes dephosphorylation of UPF1. Together with SMG7 is thought to provide a link to the mRNA degradation machinery involving exonucleolytic pathways, and to serve as an adapter for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. Necessary for TERT activity.

Gene Ontology (GO) - Molecular Function for SMG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12699629
GO:0051721 protein phosphatase 2A binding IDA 14636577
genes like me logo Genes that share ontologies with SMG5: view

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for SMG5 Gene

Localization for SMG5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMG5 Gene

Cytoplasm. Nucleus. Note=Predominantly cytoplasmic, and nuclear. Shuttles between nucleus and cytoplasm. Detected in cytoplasmic mRNA decay bodies.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SMG5 Gene COMPARTMENTS Subcellular localization image for SMG5 gene
Compartment Confidence
nucleus 5
cytosol 4
extracellular 1
mitochondrion 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for SMG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 14636577
GO:0005737 cytoplasm IDA 14636577
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SMG5: view

Pathways for SMG5 Gene

genes like me logo Genes that share pathways with SMG5: view

Pathways by source for SMG5 Gene

Gene Ontology (GO) - Biological Process for SMG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS 16488880
GO:0006406 mRNA export from nucleus TAS 16488880
GO:0010467 gene expression TAS --
GO:0016070 RNA metabolic process --
GO:0016071 mRNA metabolic process --
genes like me logo Genes that share ontologies with SMG5: view

Transcripts for SMG5 Gene

Unigene Clusters for SMG5 Gene

Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SMG5 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a · 19b · 19c ^ 20 ^
SP1: - - -
SP2: - - - - - -
SP3: -
SP4: - -
SP5:
SP6:
SP7:
SP8:
SP9:

ExUns: 21 ^ 22 ^ 23 ^ 24a · 24b ^ 25 ^ 26a · 26b · 26c
SP1: -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:

Relevant External Links for SMG5 Gene

GeneLoc Exon Structure for
SMG5
ECgene alternative splicing isoforms for
SMG5

Expression for SMG5 Gene

mRNA expression in normal human tissues for SMG5 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SMG5 Gene

SOURCE GeneReport for Unigene cluster for SMG5 Gene Hs.516837

mRNA Expression by UniProt/SwissProt for SMG5 Gene

Q9UPR3-SMG5_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expressions with SMG5: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for SMG5 Gene

Orthologs for SMG5 Gene

This gene was present in the common ancestor of animals.

Orthologs for SMG5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMG5 35
  • 99.84 (n)
  • 99.61 (a)
SMG5 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SMG5 35
  • 93.01 (n)
  • 96.16 (a)
SMG5 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SMG5 35
  • 90.87 (n)
  • 95.05 (a)
SMG5 36
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Smg5 35
  • 88.18 (n)
  • 92.71 (a)
Smg5 16
Smg5 36
  • 93 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SMG5 36
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SMG5 36
  • 60 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Smg5 35
  • 87.95 (n)
  • 92.71 (a)
chicken
(Gallus gallus)
Aves SMG5 35
  • 75.35 (n)
  • 80.04 (a)
SMG5 36
  • 77 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SMG5 36
  • 70 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.16535 35
tropical clawed frog
(Silurana tropicalis)
Amphibia smg5 35
  • 71.21 (n)
  • 74.75 (a)
zebrafish
(Danio rerio)
Actinopterygii smg5 36
  • 63 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Smg5 36
  • 19 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 24 (a)
OneToMany
-- 36
  • 37 (a)
OneToMany
Species with no ortholog for SMG5:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SMG5 Gene

ENSEMBL:
Gene Tree for SMG5 (if available)
TreeFam:
Gene Tree for SMG5 (if available)

Paralogs for SMG5 Gene

Paralogs for SMG5 Gene

Pseudogenes.org Pseudogenes for SMG5 Gene

genes like me logo Genes that share paralogs with SMG5: view

Variants for SMG5 Gene

Sequence variations from dbSNP and Humsavar for SMG5 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs759328 -- 156,261,475(-) GCTTT(C/G)CTTGC intron-variant
rs759329 -- 156,261,145(-) CTGTA(C/T)TGTGG intron-variant
rs933489 -- 156,265,329(-) GCATC(A/G)TTCTA intron-variant
rs1208917 -- 156,272,797(-) cacga(C/G)gtcag intron-variant
rs1208918 -- 156,271,850(-) tttgg(A/G)aggcc intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMG5 Gene

Variant ID Type Subtype PubMed ID
nsv509524 CNV Insertion 20534489
nsv872470 CNV Loss 21882294

Relevant External Links for SMG5 Gene

HapMap Linkage Disequilibrium report
SMG5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMG5 Gene

Disorders for SMG5 Gene

No disorders were found for SMG5 Gene.

No data available for UniProtKB/Swiss-Prot for SMG5 Gene

Publications for SMG5 Gene

  1. Phosphorylation of hUPF1 induces formation of mRNA surveillance complexes containing hSMG-5 and hSMG-7. (PMID: 14636577) Ohnishi T. … Ohno S. (Mol. Cell 2003) 3 4 23
  2. SMG7 acts as a molecular link between mRNA surveillance and mRNA decay. (PMID: 15546618) Unterholzner L. … Izaurralde E. (Mol. Cell 2004) 3 4 23
  3. Functional conservation of the telomerase protein Est1p in humans. (PMID: 12699629) Snow B.E. … Harrington L. (Curr. Biol. 2003) 2 3 4
  4. Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10470851) Kikuno R. … Ohara O. (DNA Res. 1999) 3 4
  5. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D. … Nagase T. (DNA Res. 2002) 3 4

Products for SMG5 Gene

Sources for SMG5 Gene

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