F1RCY6 · RENT1_DANRE

Function

function

RNA-dependent helicase and ATPase required for nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. Is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. The formation of an upf1-upf2-upf3 surveillance complex is believed to activate NMD.

Features

Showing features for binding site.

111001002003004005006007008009001,0001,100
TypeIDPosition(s)Description
Binding site102Zn2+ 1 (UniProtKB | ChEBI)
Binding site105Zn2+ 1 (UniProtKB | ChEBI)
Binding site116Zn2+ 2 (UniProtKB | ChEBI)
Binding site119Zn2+ 2 (UniProtKB | ChEBI)
Binding site124Zn2+ 1 (UniProtKB | ChEBI)
Binding site134Zn2+ 1 (UniProtKB | ChEBI)
Binding site138Zn2+ 2 (UniProtKB | ChEBI)
Binding site144Zn2+ 2 (UniProtKB | ChEBI)
Binding site162Zn2+ 3 (UniProtKB | ChEBI)
Binding site165Zn2+ 3 (UniProtKB | ChEBI)
Binding site188Zn2+ 3 (UniProtKB | ChEBI)
Binding site192Zn2+ 3 (UniProtKB | ChEBI)
Binding site455ATP (UniProtKB | ChEBI)
Binding site475-479ATP (UniProtKB | ChEBI)
Binding site645ATP (UniProtKB | ChEBI)
Binding site682ATP (UniProtKB | ChEBI)
Binding site813ATP (UniProtKB | ChEBI)

GO annotations

AspectTerm
Cellular Componentcytoplasm
Cellular Componentnucleus
Cellular ComponentP-body
Cellular Componentperinuclear region of cytoplasm
Molecular FunctionATP binding
Molecular FunctionDNA binding
Molecular Functionhydrolase activity
Molecular FunctionRNA binding
Molecular FunctionRNA helicase activity
Molecular Functionzinc ion binding
Biological Processchordate embryonic development
Biological Processnuclear-transcribed mRNA catabolic process
Biological Processnuclear-transcribed mRNA catabolic process, nonsense-mediated decay
Biological Processpositive regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
Biological Processregulation of gene expression
Biological ProcessT cell differentiation in thymus

Keywords

Enzyme and pathway databases

Names & Taxonomy

Protein names

  • Recommended name
    Regulator of nonsense transcripts 1
  • EC number
  • Alternative names
    • ATP-dependent helicase RENT1
    • Nonsense mRNA reducing factor 1
      (NORF1
      )
    • Up-frameshift suppressor 1 homolog

Gene names

    • Name
      upf1
    • Synonyms
      rent1

Organism names

  • Taxonomic identifier
  • Strains
    • Tuebingen
    • AB
  • Taxonomic lineage
    Eukaryota > Metazoa > Chordata > Craniata > Vertebrata > Euteleostomi > Actinopterygii > Neopterygii > Teleostei > Ostariophysi > Cypriniformes > Danionidae > Danioninae > Danio

Accessions

  • Primary accession
    F1RCY6
  • Secondary accessions
    • A0A0R4IY20
    • Q7ZVZ4

Proteomes

Organism-specific databases

Subcellular Location

Keywords

Phenotypes & Variants

Disruption phenotype

Morpholino knockdown leads to both intermediate and severe phenotypes of abnormal embryonic development (PubMed:19414594, PubMed:21227923).
Intermediate phenotypes show developmental delay, including aberrant formation of the head, tail, eye placodes and somites (PubMed:19414594, PubMed:21227923).
Severe phenotypes show severe developmental arrest, including yolk extension defects, and lack of recognizable morphological development (PubMed:19414594, PubMed:21227923).
High mortality rates of 80% to 85% at 5 days post-fertilization (PubMed:19414594).
Increase in premature stop codon containing slc24a5 mRNA transcript levels in melanocytes (PubMed:19414594, PubMed:21227923).

PTM/Processing

Features

Showing features for chain.

TypeIDPosition(s)Description
ChainPRO_00004541851-1100Regulator of nonsense transcripts 1

Keywords

Proteomic databases

Expression

Developmental stage

Expressed during early cleavage, gastrulation and at 1 day post-fertilization.

Gene expression databases

Interaction

Protein-protein interaction databases

Structure

Family & Domains

Features

Showing features for compositional bias, region, domain.

Type
IDPosition(s)Description
Compositional bias42-60Polar residues
Region42-67Disordered
Domain94-251Upf1 CH-rich
Region102-134C3H
Region116-144CC/SHH/C
Region162-192C4
Region978-1065Disordered
Compositional bias1005-1065Polar residues

Sequence similarities

Belongs to the DNA2/NAM7 helicase family.

Keywords

Phylogenomic databases

Family and domain databases

Sequence

  • Sequence status
    Complete
  • Length
    1,100
  • Mass (Da)
    122,079
  • Last updated
    2011-05-03 v1
  • Checksum
    4DEA014222AA8F59
MSVEAYGPSSQTLTFLDTEEAELLGADTQGSEFEFTDFTLPSQTQTQGQTQSQLDNQVNGPDGVLPNGEDAVGKTSQLLAELNFEEDEEDTYYTKDLPVHACSYCGIHDPACVVYCNTSKKWFCNGRGNTSGSHIVNHLVRAKCKEVTLHKDGPLGETVLECYNCGCRNVFLLGFIPAKADSVVVLLCRQPCASQSSLKDINWDSSQWQPLIQDRCFLSWLVKIPSEQEQLRARQITAQQINKLEELWKENPTATLEDLEKPGVDEEPQHVLLRYEDAYQYQNIFGPLVKLEADYDKKLKESQTQDNITVRWDLGLNKKRIAYFTLPKTDSGDMRLMQGDEICLRYKGDMAPLWKGIGHVIKVPDNYGDEIAIELRSSAGAPVEVPHNFQVDFVWKSTSFDRMQSALKTFAVDETSVSGYIYHKLLGHEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLALHNQIRNMDSMPELQKLQQLKDETGELSSSDEKRYRALKRTAERELLMNADVICCTCVGAGDPRLAKMQFRSILIDESTQATEPECMVPVVLGAKQLILVGDHCQLGPVVMCKKAAKAGLSQSLFERLVVLGIRPIRLQVQYRMHPALSAFPSNIFYEGSLQNGVTAADRLKKGFDFQWPQPDKPMFFYVTQGQEEIASSGTSYLNRTEAANVEKITTRLLKAGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIGFLNDPRRLNVALTRARYGVIIVGNPKALSKQPLWNHLLNYYKEQKVLVEGPLNNLRESLMQFSKPRKLVNTINPGARFMSTAMYDAREAMIPGSVYDRSSTGRPSNMYFQTHDQVGMIGTGPNPMGSLNIPIPFNLVMPPMPPPGYLGQVNGPAAGRGAPKGKTGGRGGRQRNRGTGNHGSGQPNMPNSQASQDLVSQPFSQGPLTQGYITMSQPSQMSQPGLSQPELSQDSYLGDEFKSQMDVALSQDSTYQGERAYQHGGVTGLSQY

Computationally mapped potential isoform sequences

There is 1 potential isoform mapped to this entry

View all
EntryEntry nameGene nameLength
A0A8M2BAV2A0A8M2BAV2_DANREupf11099

Features

Showing features for compositional bias, sequence conflict.

Type
IDPosition(s)Description
Compositional bias42-60Polar residues
Sequence conflict96in Ref. 1; CAX18770 and 3; AAH45353
Compositional bias1005-1065Polar residues

Keywords

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
FM986817
EMBL· GenBank· DDBJ
CAX18770.1
EMBL· GenBank· DDBJ
mRNA
CR931779
EMBL· GenBank· DDBJ
-Genomic DNA No translation available.
CU693375
EMBL· GenBank· DDBJ
-Genomic DNA No translation available.
BC045353
EMBL· GenBank· DDBJ
AAH45353.1
EMBL· GenBank· DDBJ
mRNA

Genome annotation databases

Similar Proteins

Disclaimer

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