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SIZ1 DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 836163, updated on 30-Sep-2024

Summary

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Official Symbol
SIZ1
Official Full Name
DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein
Primary source
TAIR:AT5G60410
Locus tag
AT5G60410
See related
Araport:AT5G60410
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
AT5G60420; ATSIZ1; MUF9.5; MUF9_5
Summary
Encodes a plant small ubiquitin-like modifier (SUMO) E3 ligase that is a focal controller of Pi starvation-dependent responses. Also required for SA and PAD4-mediated R gene signalling, which in turn confers innate immunity in Arabidopsis. Also involved in the regulation of plant growth, drought responses and freezing tolerance. This latter effect is most likely due to SIZ1 dependent ABI5 sumoylation. Regulates leaf cell division and expansion through salicylic acid accumulation. signaling
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Genomic context

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See SIZ1 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
18
Sequence:
Chromosome: 5; NC_003076.8 (24294704..24301157)

Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene GTP binding Elongation factor Tu family protein Neighboring gene uncharacterized protein Neighboring gene ncRNA Neighboring gene antiporter/ drug transporter Neighboring gene AGAMOUS-like 62

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003076.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The Arabidopsis SUMO E3 ligase SIZ1 controls phosphate deficiency responses. Miura K, et al. Proc Natl Acad Sci U S A, 2005 May 24. PMID 15894620, Free PMC Article
  2. SIZ1 small ubiquitin-like modifier E3 ligase facilitates basal thermotolerance in Arabidopsis independent of salicylic acid. Yoo CY, et al. Plant Physiol, 2006 Dec. PMID 17041025, Free PMC Article
  3. Salicylic acid-mediated innate immunity in Arabidopsis is regulated by SIZ1 SUMO E3 ligase. Lee J, et al. Plant J, 2007 Jan. PMID 17163880
  4. Specific domain structures control abscisic acid-, salicylic acid-, and stress-mediated SIZ1 phenotypes. Cheong MS, et al. Plant Physiol, 2009 Dec. PMID 19837819, Free PMC Article
  5. SIZ1 controls cell growth and plant development in Arabidopsis through salicylic acid. Miura K, et al. Plant Cell Physiol, 2010 Jan. PMID 20007967

See all (55) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. E3 SUMO ligase SIZ1 splicing variants localize and function according to external conditions.
    Title: E3 SUMO ligase SIZ1 splicing variants localize and function according to external conditions.
  2. Complex genetic interaction between glucose sensor HXK1 and E3 SUMO ligase SIZ1 in regulating plant morphogenesis.
    Title: Complex genetic interaction between glucose sensor HXK1 and E3 SUMO ligase SIZ1 in regulating plant morphogenesis.
  3. Root responses to aluminium and iron stresses require the SIZ1 SUMO ligase to modulate the STOP1 transcription factor.
    Title: Root responses to aluminium and iron stresses require the SIZ1 SUMO ligase to modulate the STOP1 transcription factor.
  4. Arabidopsis SUMO E3 Ligase SIZ1 Interacts with HDA6 and Negatively Regulates HDA6 Function during Flowering.
    Title: Arabidopsis SUMO E3 Ligase SIZ1 Interacts with HDA6 and Negatively Regulates HDA6 Function during Flowering.
  5. SIZ1 regulates phosphate deficiency-induced inhibition of primary root growth of Arabidopsis by modulating Fe accumulation and ROS production in its roots.
    Title: SIZ1 regulates phosphate deficiency-induced inhibition of primary root growth of Arabidopsis by modulating Fe accumulation and ROS production in its roots.
  6. SIZ1-Mediated SUMO Modification of SEUSS Regulates Photomorphogenesis in Arabidopsis.
    Title: SIZ1-Mediated SUMO Modification of SEUSS Regulates Photomorphogenesis in Arabidopsis.
  7. The SUMO E3 ligase SIZ1 partially regulates STOP1 SUMOylation and stability in Arabidopsis thaliana.
    Title: The SUMO E3 ligase SIZ1 partially regulates STOP1 SUMOylation and stability in Arabidopsis thaliana.
  8. SIZ1-Mediated SUMOylation of ROS1 Enhances Its Stability and Positively Regulates Active DNA Demethylation in Arabidopsis.
    Title: SIZ1-Mediated SUMOylation of ROS1 Enhances Its Stability and Positively Regulates Active DNA Demethylation in Arabidopsis.
  9. The SUMO E3 Ligase SIZ1 Negatively Regulates Shoot Regeneration.
    Title: The SUMO E3 Ligase SIZ1 Negatively Regulates Shoot Regeneration.
  10. SUMO E3 Ligase SIZ1 stabilizes MYB75 to regulate anthocyanin accumulation under high light conditions in Arabidopsis.
    Title: SUMO E3 Ligase SIZ1 stabilizes MYB75 to regulate anthocyanin accumulation under high light conditions in Arabidopsis.
Submit: New GeneRIF Correction See all GeneRIFs (47)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

NM_001037031.1
NM_001037032.2
NM_001125993.1
NM_001345415.1
NM_125434.4
NM_203240.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables SUMO binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables SUMO transferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables SUMO transferase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell division IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within cellular response to phosphate starvation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within detection of phosphate ion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in developmental growth IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within embryo sac development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in heat acclimation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
NOT involved_in induced systemic resistance, jasmonic acid mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within innate immune response-activating signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within negative regulation of flower development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of systemic acquired resistance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within plant ovule development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within pollen tube guidance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein sumoylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein sumoylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of abscisic acid-activated signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of growth IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of nitrate assimilation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of response to water deprivation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of salicylic acid metabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within response to freezing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to water deprivation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within shoot regeneration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within unidimensional cell growth IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein
NP_001032108.1
  • SIZ1; CONTAINS InterPro DOMAIN/s: Zinc finger, MIZ-type (InterPro:IPR004181), DNA-binding SAP (InterPro:IPR003034), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT5G41580.1); Has 1181 Blast hits to 1180 proteins in 204 species: Archae - 0; Bacteria - 0; Metazoa - 655; Fungi - 241; Plants - 117; Viruses - 0; Other Eukaryotes - 168 (source: NCBI BLink).
NP_001032109.2
  • SIZ1; CONTAINS InterPro DOMAIN/s: Zinc finger, MIZ-type (InterPro:IPR004181), DNA-binding SAP (InterPro:IPR003034), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT5G41580.1); Has 1191 Blast hits to 1190 proteins in 207 species: Archae - 0; Bacteria - 6; Metazoa - 659; Fungi - 241; Plants - 117; Viruses - 0; Other Eukaryotes - 168 (source: NCBI BLink).
NP_001119465.1
  • SIZ1; CONTAINS InterPro DOMAIN/s: DNA-binding SAP (InterPro:IPR003034), Zinc finger, MIZ-type (InterPro:IPR004181), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT5G41580.1); 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_200849.2
  • SIZ1; CONTAINS InterPro DOMAIN/s: DNA-binding SAP (InterPro:IPR003034), Zinc finger, MIZ-type (InterPro:IPR004181), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT5G41580.1); Has 1186 Blast hits to 1185 proteins in 207 species: Archae - 0; Bacteria - 6; Metazoa - 654; Fungi - 241; Plants - 117; Viruses - 0; Other Eukaryotes - 168 (source: NCBI BLink).
NP_974969.1
  • SIZ1; CONTAINS InterPro DOMAIN/s: DNA-binding SAP (InterPro:IPR003034), Zinc finger, MIZ-type (InterPro:IPR004181), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT5G41580.1); 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).

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_003076.8 Reference assembly

    Range
    24294704..24301157
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_125434.4 → NP_200849.2  DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_200849.2

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178UAJ3, A0A5S9YI32, A0A654GD76
    Conserved Domains (3) summary
    smart00513
    Location:14 → 45
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd15570
    Location:114 → 165
    PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
    cd16792
    Location:360 → 408
    SP-RING_Siz_plant; SP-RING finger found in Arabidopsis thaliana E3 SUMO-protein ligase SIZ1 (AtSIZ1) and similar proteins

  2. NM_203240.3 → NP_974969.1  DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_974969.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178UAJ3, A0A7G2FHN3
    Conserved Domains (3) summary
    smart00513
    Location:14 → 45
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd15570
    Location:114 → 165
    PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
    cd16792
    Location:360 → 408
    SP-RING_Siz_plant; SP-RING finger found in Arabidopsis thaliana E3 SUMO-protein ligase SIZ1 (AtSIZ1) and similar proteins

  3. NM_001345415.1 → NP_001332003.1  DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178UAJ3, A0A5S9YI32, A0A654GD76
    Conserved Domains (3) summary
    smart00513
    Location:14 → 45
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd15570
    Location:114 → 165
    PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
    cd16792
    Location:360 → 408
    SP-RING_Siz_plant; SP-RING finger found in Arabidopsis thaliana E3 SUMO-protein ligase SIZ1 (AtSIZ1) and similar proteins

  4. NM_001125993.1 → NP_001119465.1  DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001119465.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178UAJ3, A0A7G2FHN3
    Conserved Domains (3) summary
    smart00513
    Location:14 → 45
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd15570
    Location:114 → 165
    PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
    cd16792
    Location:360 → 408
    SP-RING_Siz_plant; SP-RING finger found in Arabidopsis thaliana E3 SUMO-protein ligase SIZ1 (AtSIZ1) and similar proteins

  5. NM_001037032.2 → NP_001032109.2  DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001032109.2

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    B9DG12, Q56YS2, Q56ZS1, Q67ZL3, Q680Q4, Q9FKK4
    UniProtKB/TrEMBL
    A0A178UAJ3, A0A7G2FNS4
    Conserved Domains (3) summary
    smart00513
    Location:14 → 45
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd15570
    Location:114 → 165
    PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
    cd16792
    Location:360 → 408
    SP-RING_Siz_plant; SP-RING finger found in Arabidopsis thaliana E3 SUMO-protein ligase SIZ1 (AtSIZ1) and similar proteins

  6. NM_001037031.1 → NP_001032108.1  DNA-binding protein with MIZ/SP-RING zinc finger, PHD-finger and SAP domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001032108.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178UAJ3
    Conserved Domains (3) summary
    cd15570
    Location:114 → 165
    PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
    pfam02037
    Location:11 → 45
    SAP; SAP domain
    pfam02891
    Location:359 → 408
    zf-MIZ; MIZ/SP-RING zinc finger
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q680Q4.2

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