UniProtKB - Q9S775 (PKL_ARATH)
Protein
CHD3-type chromatin-remodeling factor PICKLE
Gene
PKL
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Functioni
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.4 Publications
Miscellaneous
'Gymnos' means 'naked' in Greek.
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 49 – 96 | PHD-typePROSITE-ProRule annotationAdd BLAST | 48 | |
Nucleotide bindingi | 298 – 305 | ATPPROSITE-ProRule annotation | 8 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-KW
- DNA binding Source: TAIR
- helicase activity Source: UniProtKB-KW
- metal ion binding Source: UniProtKB-KW
- nucleosome-dependent ATPase activity Source: InterPro
GO - Biological processi
- cell division Source: TAIR
- cellular water homeostasis Source: TAIR
- chromatin remodeling Source: TAIR
- cytokinin-activated signaling pathway Source: TAIR
- negative regulation of abscisic acid-activated signaling pathway Source: TAIR
- negative regulation of transcription, DNA-templated Source: TAIR
- regulation of lateral root development Source: TAIR
- response to auxin Source: TAIR
- response to gibberellin Source: TAIR
- response to water deprivation Source: TAIR
- root development Source: TAIR
Keywordsi
Molecular function | Chromatin regulator, DNA-binding, Helicase, Hydrolase |
Ligand | ATP-binding, Metal-binding, Nucleotide-binding, Zinc |
Names & Taxonomyi
Protein namesi | Recommended name: CHD3-type chromatin-remodeling factor PICKLE (EC:3.6.4.-)Alternative name(s): Protein CHROMATIN REMODELING 61 Publication Short name: AtCHR6 Protein GYMNOS |
Gene namesi | Name:PKL Synonyms:CHR61 Publication, GYM Ordered Locus Names:At2g25170 ORF Names:F13D4.130 |
Organismi | Arabidopsis thaliana (Mouse-ear cress) |
Taxonomic identifieri | 3702 [NCBI] |
Taxonomic lineagei | Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliopsida › eudicotyledons › Gunneridae › Pentapetalae › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis |
Proteomesi |
|
Organism-specific databases
Araporti | AT2G25170 |
TAIRi | locus:2040184, AT2G25170 |
Subcellular locationi
Nucleus
- Nucleus PROSITE-ProRule annotation2 Publications
Nucleus
- nucleus Source: TAIR
Keywords - Cellular componenti
NucleusPathology & Biotechi
Disruption phenotypei
Hypersensitivity to cytokinins.1 Publication
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 301 | G → R in chk2-2; hypersensitivity to cytokinins. 1 Publication | 1 | |
Mutagenesisi | 451 | G → E in gym-4; when associated with a lack of CRC, morphological aberrations including shorter and narrower carpels containing external ovules. 1 Publication | 1 | |
Mutagenesisi | 633 – 635 | Missing in 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). 1 Publication | 3 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000233174 | 1 – 1384 | CHD3-type chromatin-remodeling factor PICKLEAdd BLAST | 1384 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 23 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
PhosphoproteinProteomic databases
PaxDbi | Q9S775 |
PRIDEi | Q9S775 |
ProteomicsDBi | 235032 |
PTM databases
iPTMneti | Q9S775 |
Expressioni
Tissue specificityi
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.3 Publications
Inductioni
Not up-regulated by cytokinins.1 Publication
Gene expression databases
ExpressionAtlasi | Q9S775, baseline and differential |
Genevisiblei | Q9S775, AT |
Interactioni
Subunit structurei
Interacts with TAF12B.
1 PublicationProtein-protein interaction databases
BioGRIDi | 2407, 2 interactors |
STRINGi | 3702.AT2G25170.1 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 98 – 180 | Chromo 1PROSITE-ProRule annotationAdd BLAST | 83 | |
Domaini | 190 – 249 | Chromo 2PROSITE-ProRule annotationAdd BLAST | 60 | |
Domaini | 285 – 471 | Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST | 187 | |
Domaini | 599 – 760 | Helicase C-terminalPROSITE-ProRule annotationAdd BLAST | 162 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 376 – 383 | Nuclear localization signalPROSITE-ProRule annotation | 8 | |
Motifi | 422 – 425 | DEAH boxPROSITE-ProRule annotation | 4 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 373 – 379 | Poly-LysSequence analysis | 7 |
Sequence similaritiesi
Belongs to the SNF2/RAD54 helicase family.Curated
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 49 – 96 | PHD-typePROSITE-ProRule annotationAdd BLAST | 48 |
Keywords - Domaini
Repeat, Zinc-fingerPhylogenomic databases
eggNOGi | KOG0383, Eukaryota |
HOGENOMi | CLU_000315_31_0_1 |
InParanoidi | Q9S775 |
OMAi | MINMDST |
PhylomeDBi | Q9S775 |
Family and domain databases
Gene3Di | 3.30.40.10, 1 hit 3.40.50.10810, 1 hit |
InterProi | View protein in InterPro IPR016197, Chromo-like_dom_sf IPR000953, Chromo/chromo_shadow_dom IPR023780, Chromo_domain IPR009462, DUF1086 IPR009463, DUF1087 IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR027417, P-loop_NTPase IPR038718, SNF2-like_sf IPR000330, SNF2_dom IPR019786, Zinc_finger_PHD-type_CS IPR001965, Znf_PHD IPR019787, Znf_PHD-finger IPR013083, Znf_RING/FYVE/PHD |
Pfami | View protein in Pfam PF00385, Chromo, 2 hits PF06461, DUF1086, 1 hit PF06465, DUF1087, 1 hit PF00271, Helicase_C, 1 hit PF00628, PHD, 1 hit PF00176, SNF2_N, 1 hit |
SMARTi | View protein in SMART SM00298, CHROMO, 2 hits SM00487, DEXDc, 1 hit SM01146, DUF1086, 1 hit SM01147, DUF1087, 1 hit SM00490, HELICc, 1 hit SM00249, PHD, 1 hit |
SUPFAMi | SSF52540, SSF52540, 2 hits SSF54160, SSF54160, 2 hits |
PROSITEi | View protein in PROSITE PS50013, CHROMO_2, 2 hits PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit PS01359, ZF_PHD_1, 1 hit PS50016, ZF_PHD_2, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All
Q9S775-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MSSLVERLRI RSDRKPVYNL DDSDDDDFVP KKDRTFEQVE AIVRTDAKEN
60 70 80 90 100
ACQACGESTN LVSCNTCTYA FHAKCLVPPL KDASVENWRC PECVSPLNEI
110 120 130 140 150
DKILDCEMRP TKSSEQGSSD AEPKPIFVKQ YLVKWKGLSY LHCSWVPEKE
160 170 180 190 200
FQKAYKSNHR LKTRVNNFHR QMESFNNSED DFVAIRPEWT TVDRILACRE
210 220 230 240 250
EDGELEYLVK YKELSYDECY WESESDISTF QNEIQRFKDV NSRTRRSKDV
260 270 280 290 300
DHKRNPRDFQ QFDHTPEFLK GLLHPYQLEG LNFLRFSWSK QTHVILADEM
310 320 330 340 350
GLGKTIQSIA LLASLFEENL IPHLVIAPLS TLRNWEREFA TWAPQMNVVM
360 370 380 390 400
YFGTAQARAV IREHEFYLSK DQKKIKKKKS GQISSESKQK RIKFDVLLTS
410 420 430 440 450
YEMINLDSAV LKPIKWECMI VDEGHRLKNK DSKLFSSLTQ YSSNHRILLT
460 470 480 490 500
GTPLQNNLDE LFMLMHFLDA GKFGSLEEFQ EEFKDINQEE QISRLHKMLA
510 520 530 540 550
PHLLRRVKKD VMKDMPPKKE LILRVDLSSL QKEYYKAIFT RNYQVLTKKG
560 570 580 590 600
GAQISLNNIM MELRKVCCHP YMLEGVEPVI HDANEAFKQL LESCGKLQLL
610 620 630 640 650
DKMMVKLKEQ GHRVLIYTQF QHMLDLLEDY CTHKKWQYER IDGKVGGAER
660 670 680 690 700
QIRIDRFNAK NSNKFCFLLS TRAGGLGINL ATADTVIIYD SDWNPHADLQ
710 720 730 740 750
AMARAHRLGQ TNKVMIYRLI NRGTIEERMM QLTKKKMVLE HLVVGKLKTQ
760 770 780 790 800
NINQEELDDI IRYGSKELFA SEDDEAGKSG KIHYDDAAID KLLDRDLVEA
810 820 830 840 850
EEVSVDDEEE NGFLKAFKVA NFEYIDENEA AALEAQRVAA ESKSSAGNSD
860 870 880 890 900
RASYWEELLK DKFELHQAEE LNALGKRKRS RKQLVSIEED DLAGLEDVSS
910 920 930 940 950
DGDESYEAES TDGEAAGQGV QTGRRPYRRK GRDNLEPTPL MEGEGRSFRV
960 970 980 990 1000
LGFNQSQRAI FVQTLMRYGA GNFDWKEFVP RLKQKTFEEI NEYGILFLKH
1010 1020 1030 1040 1050
IAEEIDENSP TFSDGVPKEG LRIEDVLVRI ALLILVQEKV KFVEDHPGKP
1060 1070 1080 1090 1100
VFPSRILERF PGLRSGKIWK EEHDKIMIRA VLKHGYGRWQ AIVDDKELGI
1110 1120 1130 1140 1150
QELICKELNF PHISLSAAEQ AGLQGQNGSG GSNPGAQTNQ NPGSVITGNN
1160 1170 1180 1190 1200
NASADGAQVN SMFYYRDMQR RLVEFVKKRV LLLEKAMNYE YAEEYYGLGG
1210 1220 1230 1240 1250
SSSIPTEEPE AEPKIADTVG VSFIEVDDEM LDGLPKTDPI TSEEIMGAAV
1260 1270 1280 1290 1300
DNNQARVEIA QHYNQMCKLL DENARESVQA YVNNQPPSTK VNESFRALKS
1310 1320 1330 1340 1350
INGNINTILS ITSDQSKSHE DDTKPDLNNV EMKDTAEETK PLRGGVVDLN
1360 1370 1380
VVEGEENIAE ASGSVDVKME EAKEEEKPKN MVVD
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketA0A1P8AZP6 | A0A1P8AZP6_ARATH | Chromatin remodeling factor CHD3 (P... | PKL CHD3, CHD3 PROTEIN, CHR6, CKH2, CYTOKININ-HYPERSENSITIVE 2 | 1,410 | Annotation score: | ||
A0A1P8AZP2 | A0A1P8AZP2_ARATH | Chromatin remodeling factor CHD3 (P... | PKL CHD3, CHD3 PROTEIN, CHR6, CKH2, CYTOKININ-HYPERSENSITIVE 2 | 1,401 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 419 | M → L in BAF01271 (Ref. 5) Curated | 1 | |
Sequence conflicti | 565 | K → R in BAF01271 (Ref. 5) Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF185578 mRNA Translation: AAF07084.1 AF185577 mRNA Translation: AAF13875.1 CP002685 Genomic DNA Translation: AEC07666.1 CP002685 Genomic DNA Translation: ANM62112.1 AK229409 mRNA Translation: BAF01271.1 |
PIRi | T52301 |
RefSeqi | NP_001324291.1, NM_001335978.1 NP_565587.1, NM_128074.4 |
Genome annotation databases
EnsemblPlantsi | AT2G25170.1; AT2G25170.1; AT2G25170 AT2G25170.4; AT2G25170.4; AT2G25170 |
GeneIDi | 817055 |
Gramenei | AT2G25170.1; AT2G25170.1; AT2G25170 AT2G25170.4; AT2G25170.4; AT2G25170 |
KEGGi | ath:AT2G25170 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF185578 mRNA Translation: AAF07084.1 AF185577 mRNA Translation: AAF13875.1 CP002685 Genomic DNA Translation: AEC07666.1 CP002685 Genomic DNA Translation: ANM62112.1 AK229409 mRNA Translation: BAF01271.1 |
PIRi | T52301 |
RefSeqi | NP_001324291.1, NM_001335978.1 NP_565587.1, NM_128074.4 |
3D structure databases
SMRi | Q9S775 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 2407, 2 interactors |
STRINGi | 3702.AT2G25170.1 |
PTM databases
iPTMneti | Q9S775 |
Proteomic databases
PaxDbi | Q9S775 |
PRIDEi | Q9S775 |
ProteomicsDBi | 235032 |
Genome annotation databases
EnsemblPlantsi | AT2G25170.1; AT2G25170.1; AT2G25170 AT2G25170.4; AT2G25170.4; AT2G25170 |
GeneIDi | 817055 |
Gramenei | AT2G25170.1; AT2G25170.1; AT2G25170 AT2G25170.4; AT2G25170.4; AT2G25170 |
KEGGi | ath:AT2G25170 |
Organism-specific databases
Araporti | AT2G25170 |
TAIRi | locus:2040184, AT2G25170 |
Phylogenomic databases
eggNOGi | KOG0383, Eukaryota |
HOGENOMi | CLU_000315_31_0_1 |
InParanoidi | Q9S775 |
OMAi | MINMDST |
PhylomeDBi | Q9S775 |
Miscellaneous databases
PROi | PR:Q9S775 |
Gene expression databases
ExpressionAtlasi | Q9S775, baseline and differential |
Genevisiblei | Q9S775, AT |
Family and domain databases
Gene3Di | 3.30.40.10, 1 hit 3.40.50.10810, 1 hit |
InterProi | View protein in InterPro IPR016197, Chromo-like_dom_sf IPR000953, Chromo/chromo_shadow_dom IPR023780, Chromo_domain IPR009462, DUF1086 IPR009463, DUF1087 IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR027417, P-loop_NTPase IPR038718, SNF2-like_sf IPR000330, SNF2_dom IPR019786, Zinc_finger_PHD-type_CS IPR001965, Znf_PHD IPR019787, Znf_PHD-finger IPR013083, Znf_RING/FYVE/PHD |
Pfami | View protein in Pfam PF00385, Chromo, 2 hits PF06461, DUF1086, 1 hit PF06465, DUF1087, 1 hit PF00271, Helicase_C, 1 hit PF00628, PHD, 1 hit PF00176, SNF2_N, 1 hit |
SMARTi | View protein in SMART SM00298, CHROMO, 2 hits SM00487, DEXDc, 1 hit SM01146, DUF1086, 1 hit SM01147, DUF1087, 1 hit SM00490, HELICc, 1 hit SM00249, PHD, 1 hit |
SUPFAMi | SSF52540, SSF52540, 2 hits SSF54160, SSF54160, 2 hits |
PROSITEi | View protein in PROSITE PS50013, CHROMO_2, 2 hits PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit PS01359, ZF_PHD_1, 1 hit PS50016, ZF_PHD_2, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | PKL_ARATH | |
Accessioni | Q9S775Primary (citable) accession number: Q9S775 Secondary accession number(s): Q0WNM8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 2, 2006 |
Last sequence update: | May 1, 2000 | |
Last modified: | April 7, 2021 | |
This is version 143 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Plant Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Arabidopsis thaliana
Arabidopsis thaliana: entries and gene names - SIMILARITY comments
Index of protein domains and families