SUVH9 SU(VAR)3-9 homolog 9 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: SUVH9
Official Full Name: SU(VAR)3-9 homolog 9
Primary source: TAIR:AT4G13460
Locus tag: AT4G13460
See related: Araport:AT4G13460
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: SDG22; SET22; SETDOMAIN GROUP 22; SU(VAR)3-9 homolog 9; T6G15.10; T6G15_10
Summary: Encodes a SU(VAR)3-9 homolog, a SET domain protein. Known SET domain proteins are involved in epigenetic control of gene expression and act as histone methyltransferases. There are 10 SUVH genes in Arabidopsis and members of this subfamily of the SET proteins have an additional conserved SRA domain. A plant line expressing an RNAi construct directed against this gene has reduced agrobacterium-mediated tumor formation.
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Genomic context

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See SUVH9 in Genome Data Viewer

Location:: chromosome: 4

Exon count:: 3

Sequence:: Chromosome: 4; NC_003075.7 (7823894..7827004, complement)

Chromosome 4 - NC_003075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

DNA polymerase epsilon interacts with SUVH2/9 to repress the expression of genes associated with meiotic DSB hotspot in Arabidopsis.
Title: DNA polymerase epsilon interacts with SUVH2/9 to repress the expression of genes associated with meiotic DSB hotspot in Arabidopsis.
Study propose that SUVH2 and SUVH9 bind to the methylated DNA and facilitate the recruitment of a chromatin-remodeling complex to the target loci in association with MORC proteins.
Title: SUVH2 and SUVH9 Couple Two Essential Steps for Transcriptional Gene Silencing in Arabidopsis.
We demonstrate that the SWI/SNF chromatin-remodeling complex components SWI3B, SWI3C, and SWI3D interact with MORC6 as well as with SUVH9 and then mediate transcriptional silencing. These results suggest that the RdDM components are involved not only in DNA methylation but also in MORC6-mediated heterochromatin condensation.
Title: Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis.
Our CHIP assay demonstrated that SUVH2 and SUVH9 are required for the occupancy of Pol V at RdDM loci and facilitate the production of Pol V-dependent noncoding RNAs
Title: The SET domain proteins SUVH2 and SUVH9 are required for Pol V occupancy at RNA-directed DNA methylation loci.
SUVH2 and SUVH9 functions in RdDM and TGS are overlapping. Pol V specific transcripts were reduced in suvh2 suvh9 plants. This might indicate a role of these SUVH proteins in Pol V complex recruitment.
Title: Developmentally non-redundant SET domain proteins SUVH2 and SUVH9 are required for transcriptional gene silencing in Arabidopsis thaliana.
SRA-domain proteins (SUVH9) are also essential for DRM2-mediated de novo and maintenance DNA methylation in Arabidopsis thaliana.
Title: SRA-domain proteins required for DRM2-mediated de novo DNA methylation.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_001036548.2

Supported by ESTs:

NM_117420.3

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables histone methyltransferase activity	IEA Inferred from Electronic Annotation more info
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 DNA-mediated transformation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in gene silencing by siRNA-directed DNA methylation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: SU(VAR)3-9 homolog 9

NP_001031625.1

SU(VAR)3-9 homolog 9 (SUVH9); FUNCTIONS IN: zinc ion binding, histone-lysine N-methyltransferase activity; INVOLVED IN: DNA mediated transformation; LOCATED IN: nucleus, chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), SRA-YDG (InterPro:IPR003105), Pre-SET zinc-binding sub-group (InterPro:IPR003606), Pre-SET domain (InterPro:IPR007728); BEST Arabidopsis thaliana protein match is: SU(VAR)3-9 homolog 2 (TAIR:AT2G33290.1); 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).

NP_193082.1

SU(VAR)3-9 homolog 9 (SUVH9); FUNCTIONS IN: zinc ion binding, histone-lysine N-methyltransferase activity; INVOLVED IN: DNA mediated transformation; LOCATED IN: nucleus, chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), SRA-YDG (InterPro:IPR003105), Pre-SET zinc-binding sub-group (InterPro:IPR003606), Pre-SET domain (InterPro:IPR007728); BEST Arabidopsis thaliana protein match is: SU(VAR)3-9 homolog 2 (TAIR:AT2G33290.1); Has 2466 Blast hits to 2313 proteins in 188 species: Archae - 0; Bacteria - 14; Metazoa - 1497; Fungi - 154; Plants - 687; Viruses - 0; Other Eukaryotes - 114 (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

NC_003075.7 Reference assembly

Range

7823894..7827004 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_117420.3 → NP_193082.1 SU(VAR)3-9 homolog 9 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_193082.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9T0G7

UniProtKB/TrEMBL

A0A5S9XRY4, B9DGV6

Conserved Domains (3) summary

smart00466
Location:200 → 356

SRA; SET and RING finger associated domain

smart00317
Location:493 → 644

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam05033
Location:387 → 485

Pre-SET; Pre-SET motif
NM_001036548.2 → NP_001031625.1 SU(VAR)3-9 homolog 9 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001031625.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9T0G7

UniProtKB/TrEMBL

A0A5S9XRY4, B9DGV6

Conserved Domains (3) summary

smart00466
Location:200 → 356

SRA; SET and RING finger associated domain

smart00317
Location:493 → 644

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam05033
Location:387 → 485

Pre-SET; Pre-SET motif