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Database: UniProt
Entry: Q9LK10
LinkDB: Q9LK10
Original site: Q9LK10 
ID   CLSY4_ARATH             Reviewed;        1132 AA.
AC   Q9LK10;
DT   18-SEP-2013, integrated into UniProtKB/Swiss-Prot.
DT   01-OCT-2000, sequence version 1.
DT   16-OCT-2019, entry version 115.
DE   RecName: Full=SNF2 domain-containing protein CLASSY 4;
DE            EC=3.6.4.-;
DE   AltName: Full=Protein CHROMATIN REMODELING 40 {ECO:0000303|PubMed:16547115};
DE            Short=AtCHR40;
GN   Name=CLSY4; Synonyms=CHR40 {ECO:0000303|PubMed:16547115};
GN   OrderedLocusNames=At3g24340; ORFNames=K7M2.11;
OS   Arabidopsis thaliana (Mouse-ear cress).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae;
OC   Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae;
OC   Arabidopsis.
OX   NCBI_TaxID=3702;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Columbia;
RX   PubMed=10907853; DOI=10.1093/dnares/7.3.217;
RA   Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.;
RT   "Structural analysis of Arabidopsis thaliana chromosome 3. II.
RT   Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC
RT   and BAC clones.";
RL   DNA Res. 7:217-221(2000).
RN   [2]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Columbia;
RX   PubMed=27862469; DOI=10.1111/tpj.13415;
RA   Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA   Town C.D.;
RT   "Araport11: a complete reannotation of the Arabidopsis thaliana
RT   reference genome.";
RL   Plant J. 89:789-804(2017).
RN   [3]
RP   GENE FAMILY, AND NOMENCLATURE.
RX   PubMed=16547115; DOI=10.1534/genetics.105.051664;
RA   Shaked H., Avivi-Ragolsky N., Levy A.A.;
RT   "Involvement of the Arabidopsis SWI2/SNF2 chromatin remodeling gene
RT   family in DNA damage response and recombination.";
RL   Genetics 173:985-994(2006).
RN   [4]
RP   IDENTIFICATION, AND GENE FAMILY.
RX   PubMed=17526749; DOI=10.1105/tpc.107.051540;
RA   Smith L.M., Pontes O., Searle I., Yelina N., Yousafzai F.K.,
RA   Herr A.J., Pikaard C.S., Baulcombe D.C.;
RT   "An SNF2 protein associated with nuclear RNA silencing and the spread
RT   of a silencing signal between cells in Arabidopsis.";
RL   Plant Cell 19:1507-1521(2007).
RN   [5]
RP   IDENTIFICATION BY MASS SPECTROMETRY, INTERACTION WITH NRPD1, AND
RP   NOMENCLATURE.
RX   PubMed=21811420; DOI=10.1371/journal.pgen.1002195;
RA   Law J.A., Vashisht A.A., Wohlschlegel J.A., Jacobsen S.E.;
RT   "SHH1, a homeodomain protein required for DNA methylation, as well as
RT   RDR2, RDM4, and chromatin remodeling factors, associate with RNA
RT   polymerase IV.";
RL   PLoS Genet. 7:E1002195-E1002195(2011).
RN   [6]
RP   GENE FAMILY.
RX   PubMed=24265739; DOI=10.1371/journal.pone.0078982;
RA   Xu R., Zhang S., Huang J., Zheng C.;
RT   "Genome-wide comparative in silico analysis of the RNA helicase gene
RT   family in Zea mays and Glycine max: a comparison with Arabidopsis and
RT   Oryza sativa.";
RL   PLoS ONE 8:E78982-E78982(2013).
CC   -!- FUNCTION: Probable chromatin remodeling factor.
CC       {ECO:0000303|PubMed:16547115}.
CC   -!- SUBUNIT: Interacts with NRPD1. {ECO:0000269|PubMed:21811420}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250, ECO:0000255|PROSITE-
CC       ProRule:PRU00768}.
CC   -!- SIMILARITY: Belongs to the SNF2/RAD54 helicase family.
CC       {ECO:0000305}.
DR   EMBL; AP000382; BAB02934.1; -; Genomic_DNA.
DR   EMBL; CP002686; AEE76891.1; -; Genomic_DNA.
DR   RefSeq; NP_189077.1; NM_113341.2.
DR   SMR; Q9LK10; -.
DR   BioGrid; 7355; 1.
DR   STRING; 3702.AT3G24340.1; -.
DR   PaxDb; Q9LK10; -.
DR   PRIDE; Q9LK10; -.
DR   EnsemblPlants; AT3G24340.1; AT3G24340.1; AT3G24340.
DR   GeneID; 822023; -.
DR   Gramene; AT3G24340.1; AT3G24340.1; AT3G24340.
DR   KEGG; ath:AT3G24340; -.
DR   Araport; AT3G24340; -.
DR   TAIR; locus:2087223; AT3G24340.
DR   eggNOG; KOG0390; Eukaryota.
DR   eggNOG; COG0553; LUCA.
DR   HOGENOM; HOG000153033; -.
DR   InParanoid; Q9LK10; -.
DR   KO; K10875; -.
DR   OMA; CSDKKSG; -.
DR   OrthoDB; 142408at2759; -.
DR   PhylomeDB; Q9LK10; -.
DR   BioCyc; ARA:GQT-2152-MONOMER; -.
DR   PRO; PR:Q9LK10; -.
DR   Proteomes; UP000006548; Chromosome 3.
DR   ExpressionAtlas; Q9LK10; baseline and differential.
DR   Genevisible; Q9LK10; AT.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
DR   GO; GO:1900370; P:positive regulation of RNA interference; IMP:TAIR.
DR   Gene3D; 3.40.50.10810; -; 1.
DR   InterPro; IPR014001; Helicase_ATP-bd.
DR   InterPro; IPR001650; Helicase_C.
DR   InterPro; IPR027417; P-loop_NTPase.
DR   InterPro; IPR038718; SNF2-like_sf.
DR   InterPro; IPR000330; SNF2_N.
DR   Pfam; PF00271; Helicase_C; 1.
DR   Pfam; PF00176; SNF2_N; 1.
DR   SMART; SM00487; DEXDc; 1.
DR   SMART; SM00490; HELICc; 1.
DR   SUPFAM; SSF52540; SSF52540; 2.
DR   PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR   PROSITE; PS51194; HELICASE_CTER; 1.
PE   1: Evidence at protein level;
KW   ATP-binding; Complete proteome; DNA-binding; Helicase; Hydrolase;
KW   Nucleotide-binding; Nucleus; Reference proteome.
FT   CHAIN         1   1132       SNF2 domain-containing protein CLASSY 4.
FT                                /FTId=PRO_0000423316.
FT   DOMAIN      603    796       Helicase ATP-binding.
FT                                {ECO:0000255|PROSITE-ProRule:PRU00541}.
FT   DOMAIN      934   1087       Helicase C-terminal.
FT                                {ECO:0000255|PROSITE-ProRule:PRU00542}.
FT   NP_BIND     616    623       ATP. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00541}.
FT   MOTIF        47     54       Nuclear localization signal.
FT                                {ECO:0000255|PROSITE-ProRule:PRU00768}.
FT   MOTIF       747    750       DEAH box. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00541}.
FT   COMPBIAS     65     68       Poly-Arg.
FT   COMPBIAS     70    315       Asp-rich. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00004}.
FT   COMPBIAS    238    300       Ser-rich.
SQ   SEQUENCE   1132 AA;  128343 MW;  AE40911268F2C917 CRC64;
     MDMTSCVARR TRSRTESYLN SILNKSKGIS GEEEDQSLGC VNSRTEKRRV NMRDACSPSP
     RKKKRRRRKD DDDDVVFVRT EYPEGKRDDE NVGSTSGNLQ SKSFDFGDRV CDFDADDRNL
     GCEEKASNFN PIDDDDDVVF VGTVQRENDH VEDDDNVGSA SVISPRVCDF DEDDAKVSGK
     ENPLSPDDDD DVVFLGTIAG ENQHVEDVNA GSEVCDILLD DANLRGEEKT YVSDEVVSLS
     SSSDDEEDPL EELGTDSREE VSGEDRDSGE SDMDEDANDS DSSDYVGESS DSSDVESSDS
     DFVCSEDEEG GTRDDATCEK NPSEKVYHHK KSRTFRRKHN FDVINLLAKS MLESKDVFKE
     DIFSWDKIAE VDSREDPVVR ESSSEKVNEH GKPRERRSFH RVREKNHLNG ESFYGGEKLC
     DGEETINYST EDSPPLNLRF GCEEPVLIEK TEEEKELDSL WEDMNVALTL EGMHSSTPDK
     NGDMLCSKGT HDFVLDDEIG LKCVHCAYVA VEIKDISPAM DKYRPSVNDN KKCSDRKGDP
     LPNRLEFDAS DPSSFVAPLD NIEGTVWQYV PGIKDTLYPH QQEGFEFIWK NLAGTTKINE
     LNSVGVKGSG GCIISHKAGT GKTRLTVVFL QSYLKRFPNS HPMVIAPATL MRTWEDEVRK
     WNVNIPFYNM NSLQLSGYED AEAVSRLEGN RHHNSIRMVK LVSWWKQKSI LGISYPLYEK
     LAANKNTEGM QVFRRMLVEL PGLLVLDEGH TPRNQSSLIW KVLTEVRTEK RIFLSGTLFQ
     NNFKELSNVL CLARPADKDT ISSRIHELSK CSQEGEHGRV NEENRIVDLK AMIAHFVHVH
     EGTILQESLP GLRDCVVVLN PPFQQKKILD RIDTSQNTFE FEHKLSAVSV HPSLYLCCNP
     TKKEDLVIGP ATLGTLKRLR LKYEEGVKTK FLIDFIRISG TVKEKVLVYS QYIDTLKLIM
     EQLIAECDWT EGEQILLMHG KVEQRDRQHM IDNFNKPDSG SKVLLASTKA CSEGISLVGA
     SRVVILDVVW NPSVESQAIS RAFRIGQKRA VFIYHLMVKD TSEWNKYCKQ SEKHRISELV
     FSSTNEKDKP INNEVVSKDR ILDEMVRHEK LKHIFEKILY HPKKSDMNTS FF
//
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