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    SYD P-loop containing nucleoside triphosphate hydrolases superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 817375, updated on 18-Sep-2024

    Summary

    Official Symbol
    SYD
    Official Full Name
    P-loop containing nucleoside triphosphate hydrolases superfamily protein
    Primary source
    TAIR:AT2G28290
    Locus tag
    AT2G28290
    See related
    Araport:AT2G28290
    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
    CHR3; CHROMATIN REMODELING COMPLEX SUBUNIT R; CHROMATIN REMODELING COMPLEX SUBUNIT R 3; SPLAYED
    Summary
    Encodes a SWI2/SNF2-like protein in the SNF2 subclass. Homozygous plants with null mutations exhibit premature termination of the meristem and carpelloid structures from the inflorescence meristem. Co-activator of floral homeotic gene expression. Acts with LFY to regulate shoot apical meristem identity. Required for meristem maintenance. Regulates flowering under a non-inductive photoperiod. It promotes the expression of CUC2 during cotyledon boundary formation. Affects reproductive shoot apical meristem function by regulating the expression of WUS. In CHiP experiments SYD binds to WUS promoter. Present as two forms in the nucleus, full-length and truncated, with the latter apparently lacking the C-terminal domain. The ratio of the two forms differs in juvenile and in adult tissues. The C-terminal domain is not required for activity.
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    Genomic context

    See SYD in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    35
    Sequence:
    Chromosome: 2; NC_003071.7 (12056213..12073279)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene Cysteine/Histidine-rich C1 domain family protein Neighboring gene miscRNA Neighboring gene Putative lysine decarboxylase family protein Neighboring gene trimethylguanosine synthase (DUF707)

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    General gene information

    NM_001084502.2
    NM_001336158.1
    NM_001336159.1
    NM_001336160.1
    NM_179785.3
    NM_179786.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ATP hydrolysis activity PubMed 
    enables ATP-dependent chromatin remodeler activity  
    enables chromatin binding PubMed 
    enables histone binding  
    enables protein binding PubMed 
    Component Evidence Code Pubs
    located_in cytosol PubMed 
    located_in nucleus PubMed 
    located_in nucleus  

    General protein information

    Preferred Names
    P-loop containing nucleoside triphosphate hydrolases superfamily protein
    NP_001077971.1
    • SPLAYED (SYD); CONTAINS InterPro DOMAIN/s: DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase/SANT-associated, DNA binding (InterPro:IPR014012), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021), SNF2-related (InterPro:IPR000330); BEST Arabidopsis thaliana protein match is: Homeotic gene regulator (TAIR:AT3G06010.1); Has 38598 Blast hits to 29293 proteins in 2471 species: Archae - 323; Bacteria - 8462; Metazoa - 11641; Fungi - 6683; Plants - 2383; Viruses - 257; Other Eukaryotes - 8849 (source: NCBI BLink).
    NP_850116.1
    • SPLAYED (SYD); CONTAINS InterPro DOMAIN/s: DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase/SANT-associated, DNA binding (InterPro:IPR014012), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021), SNF2-related (InterPro:IPR000330); BEST Arabidopsis thaliana protein match is: Homeotic gene regulator (TAIR:AT3G06010.1); Has 37832 Blast hits to 28961 proteins in 2437 species: Archae - 315; Bacteria - 8243; Metazoa - 11351; Fungi - 6777; Plants - 2369; Viruses - 253; Other Eukaryotes - 8524 (source: NCBI BLink).
    NP_850117.1
    • SPLAYED (SYD); CONTAINS InterPro DOMAIN/s: DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase/SANT-associated, DNA binding (InterPro:IPR014012), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021), SNF2-related (InterPro:IPR000330); BEST Arabidopsis thaliana protein match is: Homeotic gene regulator (TAIR:AT3G06010.1); Has 37993 Blast hits to 29119 proteins in 2440 species: Archae - 313; Bacteria - 8300; Metazoa - 11402; Fungi - 6833; Plants - 2357; Viruses - 252; Other Eukaryotes - 8536 (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
      12056213..12073279
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_179786.2 → NP_850117.1  P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850117.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9X204
      Conserved Domains (6) summary
      smart00951
      Location:277 → 310
      QLQ; QLQ is named after the conserved Gln, Leu, Gln motif
      PLN03142
      Location:603 → 1215
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03307
      Location:1490 → 1818
      PHA03307; transcriptional regulator ICP4; Provisional
      COG5271
      Location:2213 → 2589
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      PRK10811
      Location:3167 → 3336
      rne; ribonuclease E; Reviewed
      pfam14619
      Location:1282 → 1368
      SnAC; Snf2-ATP coupling, chromatin remodelling complex
    2. NM_001084502.2 → NP_001077971.1  P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001077971.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VTN0, A0A5S9X204
      Conserved Domains (6) summary
      smart00951
      Location:277 → 310
      QLQ; QLQ is named after the conserved Gln, Leu, Gln motif
      PLN03142
      Location:603 → 1215
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03307
      Location:1490 → 1818
      PHA03307; transcriptional regulator ICP4; Provisional
      COG5271
      Location:2213 → 2589
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      PRK10811
      Location:3167 → 3336
      rne; ribonuclease E; Reviewed
      pfam14619
      Location:1282 → 1368
      SnAC; Snf2-ATP coupling, chromatin remodelling complex
    3. NM_179785.3 → NP_850116.1  P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850116.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IHS2, F4IHS3, F4IHS4, Q5BN47, Q8L9D7, Q9AUB4, Q9SL27
      UniProtKB/TrEMBL
      A0A178VWG9, A0A5S9X204
      Conserved Domains (6) summary
      smart00951
      Location:277 → 310
      QLQ; QLQ is named after the conserved Gln, Leu, Gln motif
      PLN03142
      Location:603 → 1215
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03307
      Location:1490 → 1818
      PHA03307; transcriptional regulator ICP4; Provisional
      COG5271
      Location:2213 → 2589
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      PRK10811
      Location:3167 → 3341
      rne; ribonuclease E; Reviewed
      pfam14619
      Location:1306 → 1368
      SnAC; Snf2-ATP coupling, chromatin remodelling complex
    4. NM_001336158.1 → NP_001325347.1  P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VTN0, A0A5S9X204
      Conserved Domains (6) summary
      smart00951
      Location:277 → 310
      QLQ; QLQ is named after the conserved Gln, Leu, Gln motif
      PLN03142
      Location:603 → 1215
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03307
      Location:1490 → 1818
      PHA03307; transcriptional regulator ICP4; Provisional
      COG5271
      Location:2213 → 2589
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      PRK10811
      Location:3167 → 3336
      rne; ribonuclease E; Reviewed
      pfam14619
      Location:1282 → 1368
      SnAC; Snf2-ATP coupling, chromatin remodelling complex
    5. NM_001336160.1 → NP_001325349.1  P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B2Y3, A0A5S9X204
    6. NM_001336159.1 → NP_001325348.1  P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VTI3, A0A1P8B2X1, A0A384L3H2, A0A5S9X204
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