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UBP1B oligouridylate binding protein 1B [ Arabidopsis thaliana (thale cress) ]

Gene ID: 838309, updated on 18-Sep-2024

Summary

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Official Symbol
UBP1B
Official Full Name
oligouridylate binding protein 1B
Primary source
TAIR:AT1G17370
Locus tag
AT1G17370
See related
Araport:AT1G17370
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
F28G4.17; oligouridylate binding protein 1B
Summary
Encodes an RNA#Aeibinding protein involved in stress granule formation. Regulated by a transposable element small RNA.
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Genomic context

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See UBP1B in Genome Data Viewer
Location:
chromosome: 1
Exon count:
12
Sequence:
Chromosome: 1; NC_003070.9 (5951542..5955143, complement)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene NADH:ubiquinone oxidoreductase intermediate-associated protein 30 Neighboring gene LOW protein: protein phosphatase 1 regulatory subunit-like protein Neighboring gene ncRNA Neighboring gene jasmonate-zim-domain protein 5 Neighboring gene pseudo

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. UBA1 and UBA2, two proteins that interact with UBP1, a multifunctional effector of pre-mRNA maturation in plants. Lambermon MH, et al. Mol Cell Biol, 2002 Jun. PMID 12024044, Free PMC Article
  2. In Planta Determination of the mRNA-Binding Proteome of Arabidopsis Etiolated Seedlings. Reichel M, et al. Plant Cell, 2016 Oct. PMID 27729395, Free PMC Article
  3. Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism. Ito J, et al. J Proteome Res, 2011 Apr 1. PMID 21166475
  4. Mapping the signaling network of BIN2 kinase using TurboID-mediated biotin labeling and phosphoproteomics. Kim TW, et al. Plant Cell, 2023 Mar 15. PMID 36660928, Free PMC Article
  5. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

NM_001123829.1
NM_101598.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables mRNA binding HDA PubMed 
enables mRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
NOT located_in cytosol RCA
inferred from Reviewed Computational Analysis
more info
 PubMed 

General protein information

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Preferred Names
oligouridylate binding protein 1B
NP_001117301.1
  • oligouridylate binding protein 1B (UBP1B); FUNCTIONS IN: mRNA 3'-UTR binding; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: RNA-binding (RRM/RBD/RNP motifs) family protein (TAIR:AT3G14100.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
NP_564018.1
  • oligouridylate binding protein 1B (UBP1B); FUNCTIONS IN: mRNA 3'-UTR binding; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: RNA-binding (RRM/RBD/RNP motifs) family protein (TAIR:AT3G14100.1); Has 681 Blast hits to 681 proteins in 21 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 681; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

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_003070.9 Reference assembly

    Range
    5951542..5955143 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_101598.3 → NP_564018.1  oligouridylate binding protein 1B [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_564018.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q9LNS1, Q9LQI9
    UniProtKB/TrEMBL
    A0A178WA94, A0A5S9UUW5, A0A654EFP5
    Conserved Domains (3) summary
    cd12614
    Location:56 → 126
    RRM1_PUB1; RNA recognition motif 1 (RRM1) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins
    cd12619
    Location:138 → 217
    RRM2_PUB1; RNA recognition motif 2 (RRM2) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins
    cd12622
    Location:260 → 336
    RRM3_PUB1; RNA recognition motif 3 (RRM3) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

  2. NM_001123829.1 → NP_001117301.1  oligouridylate binding protein 1B [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001117301.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178WA94, B3H4Q3
    Conserved Domains (4) summary
    cd12352
    Location:56 → 126
    RRM1_TIA1_like; RNA recognition motif 1 in granule-associated RNA binding proteins p40-TIA-1 and TIAR
    cd12354
    Location:257 → 332
    RRM3_TIA1_like; RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1
    cd12619
    Location:140 → 214
    RRM2_PUB1; RNA recognition motif 2 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins
    TIGR01661
    Location:65 → 328
    ELAV_HUD_SF; ELAV/HuD family splicing factor
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9LQI9.1

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