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    OTLD1 OTU-like cysteine protease family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 817278, updated on 18-Sep-2024

    Summary

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    Official Symbol
    OTLD1
    Official Full Name
    OTU-like cysteine protease family protein
    Primary source
    TAIR:AT2G27350
    Locus tag
    AT2G27350
    See related
    Araport:AT2G27350
    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
    F12K2.7; F12K2_7; otubain-like deubiquitinase 1
    Summary
    Encodes an otubain-like histone deubiquitinase involved in chromatin modification and regulation of plant gene expression.
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    Genomic context

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    See OTLD1 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    10
    Sequence:
    Chromosome: 2; NC_003071.7 (11699548..11704303, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene NEP-interacting protein, putative (DUF239) Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene N-acetylglucosaminylphosphatidylinositol de-N-acetylase family protein Neighboring gene GDSL-like Lipase/Acylhydrolase superfamily protein Neighboring gene Uncharacterized protein family (UPF0497)

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Activation of gene expression by histone deubiquitinase OTLD1. Keren I, et al. Epigenetics, 2017 Jul 3. PMID 28703681, Free PMC Article
    2. The histone deubiquitinase OTLD1 targets euchromatin to regulate plant growth. Keren I, et al. Sci Signal, 2016 Dec 20. PMID 27999174, Free PMC Article
    3. Arabidopsis LSH10 transcription factor and OTLD1 histone deubiquitinase interact and transcriptionally regulate the same target genes. Vo Phan MS, et al. Commun Biol, 2023 Jan 17. PMID 36650214, Free PMC Article
    4. Involvement of KDM1C histone demethylase-OTLD1 otubain-like histone deubiquitinase complexes in plant gene repression. Krichevsky A, et al. Proc Natl Acad Sci U S A, 2011 Jul 5. PMID 21690391, Free PMC Article
    5. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Arabidopsis LSH10 transcription factor and OTLD1 histone deubiquitinase interact and transcriptionally regulate the same target genes.
      Title: Arabidopsis LSH10 transcription factor and OTLD1 histone deubiquitinase interact and transcriptionally regulate the same target genes.
    2. OTLD1 can play a dual role in transcriptional repression and activation of its target genes via target chromatin remodeling.
      Title: Activation of gene expression by histone deubiquitinase OTLD1.
    3. these data indicate that OTLD1 promotes the concerted epigenetic regulation of a set of genes that collectively limit plant growth.
      Title: The histone deubiquitinase OTLD1 targets euchromatin to regulate plant growth.
    4. Otubain-like deubiquitinase, OTLD1, directly interacts with Arabidopsis KDM1C in vivo; both of them are involved in transcriptional gene repression via histone deubiquitination and demethylation. [OTLD1]
      Title: Involvement of KDM1C histone demethylase-OTLD1 otubain-like histone deubiquitinase complexes in plant gene repression.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Miscellaneous features

    • Loc: c11702537-11702406 AT2G27350.uORF1
    NM_001202687.2
    NM_128294.2
    NM_179768.4
    NM_201815.2
    NM_201816.5
    NM_201817.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone deubiquitinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables nucleosome binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of DNA-templated transcription IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in negative regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of gene expression, epigenetic IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of gene expression, epigenetic IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of chromatin organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    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
    OTU-like cysteine protease family protein
    NP_001189616.1
    • OTU-like cysteine protease family protein; FUNCTIONS IN: cysteine-type peptidase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Ovarian tumour, otubain (InterPro:IPR003323); BEST Arabidopsis thaliana protein match is: SEC-C motif-containing protein / OTU-like cysteine protease family protein (TAIR:AT5G67170.2).
    NP_565648.1
    • OTU-like cysteine protease family protein; FUNCTIONS IN: cysteine-type peptidase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Ovarian tumour, otubain (InterPro:IPR003323); BEST Arabidopsis thaliana protein match is: SEC-C motif-containing protein / OTU-like cysteine protease family protein (TAIR:AT5G67170.2); Has 2113 Blast hits to 1438 proteins in 217 species: Archae - 0; Bacteria - 20; Metazoa - 656; Fungi - 244; Plants - 357; Viruses - 15; Other Eukaryotes - 821 (source: NCBI BLink).
    NP_850099.1
    • OTU-like cysteine protease family protein; FUNCTIONS IN: cysteine-type peptidase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Ovarian tumour, otubain (InterPro:IPR003323); BEST Arabidopsis thaliana protein match is: SEC-C motif-containing protein / OTU-like cysteine protease family protein (TAIR:AT5G67170.2); Has 2113 Blast hits to 1438 proteins in 217 species: Archae - 0; Bacteria - 20; Metazoa - 656; Fungi - 244; Plants - 357; Viruses - 15; Other Eukaryotes - 821 (source: NCBI BLink).
    NP_973544.1
    • OTU-like cysteine protease family protein; FUNCTIONS IN: cysteine-type peptidase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Ovarian tumour, otubain (InterPro:IPR003323); BEST Arabidopsis thaliana protein match is: SEC-C motif-containing protein / OTU-like cysteine protease family protein (TAIR:AT5G67170.2); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_973545.2
    • OTU-like cysteine protease family protein; FUNCTIONS IN: cysteine-type peptidase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Ovarian tumour, otubain (InterPro:IPR003323); BEST Arabidopsis thaliana protein match is: SEC-C motif-containing protein / OTU-like cysteine protease family protein (TAIR:AT5G67170.2); 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_973546.2
    • OTU-like cysteine protease family protein; FUNCTIONS IN: cysteine-type peptidase activity; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), Ovarian tumour, otubain (InterPro:IPR003323); BEST Arabidopsis thaliana protein match is: SEC-C motif-containing protein / OTU-like cysteine protease family protein (TAIR:AT5G67170.2); Has 1771 Blast hits to 1440 proteins in 217 species: Archae - 0; Bacteria - 18; Metazoa - 660; Fungi - 248; Plants - 357; Viruses - 15; Other Eukaryotes - 473 (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_003071.7 Reference assembly

      Range
      11699548..11704303 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_179768.4 → NP_850099.1  OTU-like cysteine protease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850099.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IFS7, Q93Z76, Q9XIP2
      UniProtKB/TrEMBL
      A0A178VTT9, A0A654EWN6
      Conserved Domains (1) summary
      cl19932
      Location:224 → 333
      OTU; OTU-like cysteine protease

    2. NM_201816.5 → NP_973545.2  OTU-like cysteine protease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973545.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VVD1
      Conserved Domains (1) summary
      cl19932
      Location:224 → 333
      OTU; OTU-like cysteine protease

    3. NM_201817.2 → NP_973546.2  OTU-like cysteine protease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973546.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VVD1
      Conserved Domains (1) summary
      cl19932
      Location:224 → 333
      OTU; OTU-like cysteine protease

    4. NM_201815.2 → NP_973544.1  OTU-like cysteine protease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973544.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VVD1
      Conserved Domains (1) summary
      cl19932
      Location:224 → 333
      OTU; OTU-like cysteine protease

    5. NM_128294.2 → NP_565648.1  OTU-like cysteine protease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_565648.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IFS7, Q93Z76, Q9XIP2
      UniProtKB/TrEMBL
      A0A178VTT9, A0A654EWN6
      Conserved Domains (1) summary
      cl19932
      Location:224 → 333
      OTU; OTU-like cysteine protease

    6. NM_001202687.2 → NP_001189616.1  OTU-like cysteine protease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189616.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VVD1
      Conserved Domains (1) summary
      cl19932
      Location:224 → 333
      OTU; OTU-like cysteine protease
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9XIP2.2

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