Q9S775 · PKL_ARATH

Function

function

Chromatin remodeling factor that represses the expression of embryonic trait genes (such as NFYB9/LEC1) upon and after seed germination and thus enables the developmental switch to post-germinative growth. Silences some MADS-box proteins such as PHE1 and PHE2. Plays a role during carpel differentiation. Regulates late processes in cytokinin signaling.

Miscellaneous

'Gymnos' means 'naked' in Greek.

Features

Showing features for binding site.

113841002003004005006007008009001,0001,1001,2001,300
TypeIDPosition(s)Description
Binding site298-305ATP (UniProtKB | ChEBI)

GO annotations

all annotationsall molecular functionnucleotide bindingmolecular_functionnucleic acid bindingdna bindingchromatin bindingdna-binding transcription factor activityrna bindingcytoskeletal motor activitycatalytic activitynuclease activitysignaling receptor bindingstructural molecule activitytransporter activitybindingprotein bindingtranslation factor activity, rna bindinglipid bindingkinase activitytransferase activityhydrolase activityoxygen bindingenzyme regulator activitycarbohydrate bindingsignaling receptor activitytranslation regulator activitytranscription regulator activityother molecular functionall biological processcarbohydrate metabolic processgeneration of precursor metabolites and energynucleobase-containing compound metabolic processdna metabolic processtranslationlipid metabolic processtransportresponse to stresscell cyclecell communicationsignal transductioncell-cell signalingmulticellular organism developmentcircadian rhythmbiological_processmetabolic processcatabolic processbiosynthetic processresponse to light stimulusresponse to external stimulustropismresponse to biotic stimulusresponse to abiotic stimulusresponse to endogenous stimulusembryo developmentpost-embryonic developmentfruit ripeningabscissionpollinationflower developmentcellular processprogrammed cell deathphotosynthesiscellular component organizationcell growthprotein metabolic processcellular homeostasissecondary metabolic processreproductive processcell differentiationprotein modification processgrowthepigenetic regulation of gene expressionresponse to chemicalanatomical structure developmentregulation of molecular functionother biological processall cellular componentcellular_componentextracellular regioncell wallintracellular anatomical structurenucleusnuclear envelopenucleoplasmnucleoluscytoplasmmitochondrionlysosomeendosomevacuoleperoxisomeendoplasmic reticulumgolgi apparatuscytosolribosomecytoskeletonplasma membranechloroplastplastidthylakoidmembraneexternal encapsulating structureother cellular component
Cell color indicative of number of GO terms
AspectTerm
Cellular Componentnucleus
Molecular FunctionATP binding
Molecular FunctionDNA binding
Molecular Functionhelicase activity
Molecular Functionhydrolase activity
Molecular Functionmetal ion binding
Biological Processcell division
Biological Processchromatin remodeling
Biological Processcytokinin-activated signaling pathway
Biological Processintracellular water homeostasis
Biological Processnegative regulation of abscisic acid-activated signaling pathway
Biological Processnegative regulation of DNA-templated transcription
Biological Processregulation of lateral root development
Biological Processresponse to auxin
Biological Processresponse to gibberellin
Biological Processresponse to water deprivation
Biological Processroot development

Keywords

Enzyme and pathway databases

Names & Taxonomy

Protein names

  • Recommended name
    CHD3-type chromatin-remodeling factor PICKLE
  • EC number
  • Alternative names
    • Protein CHROMATIN REMODELING 6
      (AtCHR6)
    • Protein GYMNOS

Gene names

    • Name
      PKL
    • Synonyms
      CHR6
      , GYM
    • ORF names
      F13D4.130
    • Ordered locus names
      At2g25170

Organism names

  • Taxonomic identifier
  • Strain
    • cv. Columbia
  • Taxonomic lineage
    Eukaryota > Viridiplantae > Streptophyta > Embryophyta > Tracheophyta > Spermatophyta > Magnoliopsida > eudicotyledons > Gunneridae > Pentapetalae > rosids > malvids > Brassicales > Brassicaceae > Camelineae > Arabidopsis

Accessions

  • Primary accession
    Q9S775
  • Secondary accessions
    • Q0WNM8

Proteomes

Organism-specific databases

Genome annotation databases

Subcellular Location

Nucleus

Keywords

Phenotypes & Variants

Disruption phenotype

Hypersensitivity to cytokinins.

Features

Showing features for mutagenesis.

TypeIDPosition(s)Description
Mutagenesis301In chk2-2; hypersensitivity to cytokinins.
Mutagenesis451In gym-4; when associated with a lack of CRC, morphological aberrations including shorter and narrower carpels containing external ovules.
Mutagenesis633-635In pkl-1; embryonic traits expressed after germination including pickle roots (primary roots of adult plants that express embryonic differentiation traits such as expression of storage protein genes and accumulation of storage lipids).

PTM/Processing

Features

Showing features for chain, modified residue.

Type
IDPosition(s)Description
ChainPRO_00002331741-1384CHD3-type chromatin-remodeling factor PICKLE
Modified residue23Phosphoserine

Keywords

Proteomic databases

PTM databases

Expression

Tissue specificity

Mostly expressed in tissue undergoing significant differentiation (meristems and primordia) such as young seedlings, influorescent tissue and young siliques, but not in endosperm and seed coat (at protein level). Levels decrease as organs age. Also present in trichomes.

Induction

Not up-regulated by cytokinins.

Gene expression databases

Interaction

Subunit

Interacts with TAF12B.

Protein-protein interaction databases

Structure

Family & Domains

Features

Showing features for zinc finger, domain, motif, compositional bias, region.

Type
IDPosition(s)Description
Zinc finger49-96PHD-type
Domain98-180Chromo 1
Domain190-249Chromo 2
Domain285-471Helicase ATP-binding
Motif376-383Nuclear localization signal
Motif422-425DEAH box
Domain599-760Helicase C-terminal
Compositional bias893-912Acidic residues
Region893-941Disordered
Region1122-1152Disordered
Compositional bias1138-1152Polar residues
Region1313-1344Disordered
Compositional bias1316-1341Basic and acidic residues
Region1365-1384Disordered
Compositional bias1367-1384Basic and acidic residues

Sequence similarities

Belongs to the SNF2/RAD54 helicase family.

Keywords

Phylogenomic databases

Family and domain databases

Sequence

  • Sequence status
    Complete
  • Length
    1,384
  • Mass (Da)
    158,405
  • Last updated
    2000-05-01 v1
  • MD5 Checksum
    19A15D1ED7B2A4D0EA75F092E51FD613
MSSLVERLRIRSDRKPVYNLDDSDDDDFVPKKDRTFEQVEAIVRTDAKENACQACGESTNLVSCNTCTYAFHAKCLVPPLKDASVENWRCPECVSPLNEIDKILDCEMRPTKSSEQGSSDAEPKPIFVKQYLVKWKGLSYLHCSWVPEKEFQKAYKSNHRLKTRVNNFHRQMESFNNSEDDFVAIRPEWTTVDRILACREEDGELEYLVKYKELSYDECYWESESDISTFQNEIQRFKDVNSRTRRSKDVDHKRNPRDFQQFDHTPEFLKGLLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIALLASLFEENLIPHLVIAPLSTLRNWEREFATWAPQMNVVMYFGTAQARAVIREHEFYLSKDQKKIKKKKSGQISSESKQKRIKFDVLLTSYEMINLDSAVLKPIKWECMIVDEGHRLKNKDSKLFSSLTQYSSNHRILLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHKMLAPHLLRRVKKDVMKDMPPKKELILRVDLSSLQKEYYKAIFTRNYQVLTKKGGAQISLNNIMMELRKVCCHPYMLEGVEPVIHDANEAFKQLLESCGKLQLLDKMMVKLKEQGHRVLIYTQFQHMLDLLEDYCTHKKWQYERIDGKVGGAERQIRIDRFNAKNSNKFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIYRLINRGTIEERMMQLTKKKMVLEHLVVGKLKTQNINQEELDDIIRYGSKELFASEDDEAGKSGKIHYDDAAIDKLLDRDLVEAEEVSVDDEEENGFLKAFKVANFEYIDENEAAALEAQRVAAESKSSAGNSDRASYWEELLKDKFELHQAEELNALGKRKRSRKQLVSIEEDDLAGLEDVSSDGDESYEAESTDGEAAGQGVQTGRRPYRRKGRDNLEPTPLMEGEGRSFRVLGFNQSQRAIFVQTLMRYGAGNFDWKEFVPRLKQKTFEEINEYGILFLKHIAEEIDENSPTFSDGVPKEGLRIEDVLVRIALLILVQEKVKFVEDHPGKPVFPSRILERFPGLRSGKIWKEEHDKIMIRAVLKHGYGRWQAIVDDKELGIQELICKELNFPHISLSAAEQAGLQGQNGSGGSNPGAQTNQNPGSVITGNNNASADGAQVNSMFYYRDMQRRLVEFVKKRVLLLEKAMNYEYAEEYYGLGGSSSIPTEEPEAEPKIADTVGVSFIEVDDEMLDGLPKTDPITSEEIMGAAVDNNQARVEIAQHYNQMCKLLDENARESVQAYVNNQPPSTKVNESFRALKSINGNINTILSITSDQSKSHEDDTKPDLNNVEMKDTAEETKPLRGGVVDLNVVEGEENIAEASGSVDVKMEEAKEEEKPKNMVVD

Computationally mapped potential isoform sequences

There are 2 potential isoforms mapped to this entry

View all
EntryEntry nameGene nameLength
A0A1P8AZP2A0A1P8AZP2_ARATHPKL1401
A0A1P8AZP6A0A1P8AZP6_ARATHPKL1410

Features

Showing features for sequence conflict, compositional bias.

Type
IDPosition(s)Description
Sequence conflict419in Ref. 5; BAF01271
Sequence conflict565in Ref. 5; BAF01271
Compositional bias893-912Acidic residues
Compositional bias1138-1152Polar residues
Compositional bias1316-1341Basic and acidic residues
Compositional bias1367-1384Basic and acidic residues

Keywords

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
AF185578
EMBL· GenBank· DDBJ
AAF07084.1
EMBL· GenBank· DDBJ
mRNA
AF185577
EMBL· GenBank· DDBJ
AAF13875.1
EMBL· GenBank· DDBJ
mRNA
CP002685
EMBL· GenBank· DDBJ
AEC07666.1
EMBL· GenBank· DDBJ
Genomic DNA
CP002685
EMBL· GenBank· DDBJ
ANM62112.1
EMBL· GenBank· DDBJ
Genomic DNA
AK229409
EMBL· GenBank· DDBJ
BAF01271.1
EMBL· GenBank· DDBJ
mRNA

Genome annotation databases

Similar Proteins

Disclaimer

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