PKR2 chromatin remodeling factor [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: PKR2
Official Full Name: chromatin remodeling factor
Primary source: TAIR:AT4G31900
Locus tag: AT4G31900
See related: Araport:AT4G31900
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: CHR7; chromatin remodeling 7; F11C18.100; F11C18_100; PICKLE RELATED 2
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Genomic context

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See PKR2 in Genome Data Viewer

Location:: chromosome: 4

Exon count:: 31

Sequence:: Chromosome: 4; NC_003075.7 (15431350..15438678)

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?

PICKLE RELATED 2 is a Neofunctionalized Gene Duplicate Under Positive Selection With Antagonistic Effects to the Ancestral PICKLE Gene on the Seed Transcriptome.
Title: PICKLE RELATED 2 is a Neofunctionalized Gene Duplicate Under Positive Selection With Antagonistic Effects to the Ancestral PICKLE Gene on the Seed Transcriptome.
Chromodomain/helicase/DNA-binding domain CHD3 proteins PICKLE (PKL) and PICKLE RELATED2 (PKR2) have trxG-like functions in plants and are required for the expression of many genes that are repressed by PcG proteins. [PKR2]
Title: CHD3 proteins and polycomb group proteins antagonistically determine cell identity in Arabidopsis.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables ATP-dependent chromatin remodeler activity	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info

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

General protein information

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Preferred Names: chromatin remodeling factor

NP_001190884.1

PICKLE RELATED 2 (PKR2); FUNCTIONS IN: in 6 functions; INVOLVED IN: chromatin assembly or disassembly; LOCATED IN: chromatin, nucleus; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF1087 (InterPro:IPR009463), DEAD-like helicase, N-terminal (InterPro:IPR014001), Protein of unknown function DUF1086 (InterPro:IPR009462), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021), Chromo domain (InterPro:IPR000953), SNF2-related (InterPro:IPR000330); BEST Arabidopsis thaliana protein match is: chromatin remodeling factor CHD3 (PICKLE) (TAIR:AT2G25170.1).

NP_194918.2

PICKLE RELATED 2 (PKR2); FUNCTIONS IN: in 6 functions; INVOLVED IN: chromatin assembly or disassembly; LOCATED IN: chromatin, nucleus; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF1087 (InterPro:IPR009463), Protein of unknown function DUF1086 (InterPro:IPR009462), Chromo domain (InterPro:IPR000953), SNF2-related (InterPro:IPR000330), DEAD-like helicase, N-terminal (InterPro:IPR014001), Chromo domain-like (InterPro:IPR016197), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: chromatin remodeling factor CHD3 (PICKLE) (TAIR:AT2G25170.1); Has 19383 Blast hits to 16625 proteins in 2121 species: Archae - 158; Bacteria - 5872; Metazoa - 3841; Fungi - 4162; Plants - 1629; Viruses - 186; Other Eukaryotes - 3535 (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

15431350..15438678

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001203955.1 → NP_001190884.1 chromatin remodeling factor [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001190884.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A654FUR7, F4JTF7

Conserved Domains (6) summary

smart00298
Location:99 → 150

CHROMO; Chromatin organization modifier domain

cd00046
Location:204 → 346

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

pfam00176
Location:187 → 461

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:482 → 597

Helicase_C; Helicase conserved C-terminal domain

pfam06461
Location:814 → 958

DUF1086; Domain of Unknown Function (DUF1086)

pfam06465
Location:733 → 775

DUF1087; Domain of Unknown Function (DUF1087)
NM_001342121.1 → NP_001328314.1 chromatin remodeling factor [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A178UZA8, A0A1P8B487, A0A384K9Q8, A0A654FUR7, A0A7G2F268

Conserved Domains (5) summary

PLN03142
Location:218 → 699

PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional

cd18659
Location:140 → 191

CD2_tandem; repeat 2 of paired tandem chromodomains

cd18660
Location:43 → 118

CD1_tandem; repeat 1 of paired tandem chromodomains

pfam06461
Location:855 → 991

DUF1086; Domain of Unknown Function (DUF1086)

pfam06465
Location:774 → 816

DUF1087; Domain of Unknown Function (DUF1087)
NM_119341.2 → NP_194918.2 chromatin remodeling factor [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_194918.2

Status: REVIEWED

UniProtKB/Swiss-Prot

F4JTF6, Q9SZ57

UniProtKB/TrEMBL

A0A654FUR7

Conserved Domains (7) summary

smart00298
Location:140 → 191

CHROMO; Chromatin organization modifier domain

cd00024
Location:46 → 112

CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...

cd00046
Location:245 → 387

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

pfam00176
Location:228 → 502

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:523 → 638

Helicase_C; Helicase conserved C-terminal domain

pfam06461
Location:855 → 999

DUF1086; Domain of Unknown Function (DUF1086)

pfam06465
Location:774 → 816

DUF1087; Domain of Unknown Function (DUF1087)