CHR4_ARATH
ID CHR4_ARATH Reviewed; 2223 AA.
AC F4KBP5; O48579; Q8GX65;
DT 29-OCT-2014, integrated into UniProtKB/Swiss-Prot.
DT 28-JUN-2011, sequence version 1.
DT 03-AUG-2022, entry version 71.
DE RecName: Full=Protein CHROMATIN REMODELING 4 {ECO:0000303|PubMed:16547115};
DE Short=AtCHR4;
DE EC=3.6.4.-;
DE AltName: Full=Protein PICKLE RELATED 1 {ECO:0000303|PubMed:10570159};
GN Name=CHR4 {ECO:0000303|PubMed:16547115};
GN Synonyms=PKR1 {ECO:0000303|PubMed:10570159};
GN OrderedLocusNames=At5g44800 {ECO:0000312|Araport:AT5G44800};
GN ORFNames=K23L20_15 {ECO:0000312|EMBL:BAB08833.1},
GN T19K24.8 {ECO:0000312|EMBL:AAC79140.1};
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702 {ECO:0000312|Proteomes:UP000006548};
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10048488; DOI=10.1093/dnares/5.6.379;
RA Asamizu E., Sato S., Kaneko T., Nakamura Y., Kotani H., Miyajima N.,
RA Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. VIII. Sequence
RT features of the regions of 1,081,958 bp covered by seventeen physically
RT assigned P1 and TAC clones.";
RL DNA Res. 5:379-391(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130714; DOI=10.1038/35048507;
RA Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E.,
RA Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M.,
RA Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.,
RA Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M.,
RA Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L.,
RA O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D.,
RA Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M.,
RA Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L.,
RA Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B.,
RA Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P.,
RA Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M.,
RA Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D.,
RA Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A.,
RA Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I.,
RA Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T.,
RA Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A.,
RA McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U.,
RA Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W.,
RA Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M.,
RA Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S.,
RA Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G.,
RA Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W.,
RA Bevan M., Fransz P.F.;
RT "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana.";
RL Nature 408:823-826(2000).
RN [3]
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 reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1686-2223.
RC STRAIN=cv. Columbia;
RX PubMed=11910074; DOI=10.1126/science.1071006;
RA Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T.,
RA Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y.,
RA Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K.,
RA Shinagawa A., Shinozaki K.;
RT "Functional annotation of a full-length Arabidopsis cDNA collection.";
RL Science 296:141-145(2002).
RN [5]
RP IDENTIFICATION.
RX PubMed=10570159; DOI=10.1073/pnas.96.24.13839;
RA Ogas J., Kaufmann S., Henderson J., Somerville C.;
RT "PICKLE is a CHD3 chromatin-remodeling factor that regulates the transition
RT from embryonic to vegetative development in Arabidopsis.";
RL Proc. Natl. Acad. Sci. U.S.A. 96:13839-13844(1999).
RN [6]
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 family
RT in DNA damage response and recombination.";
RL Genetics 173:985-994(2006).
RN [7]
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 family
RT in Zea mays and Glycine max: a comparison with Arabidopsis and Oryza
RT sativa.";
RL PLoS ONE 8:E78982-E78982(2013).
CC -!- FUNCTION: Chromatin-remodeling protein that binds DNA through histones
CC and regulates gene transcription. May specifically recognize and bind
CC trimethylated 'Lys-27' (H3K27me3) and non-methylated 'Lys-4' of histone
CC H3 (By similarity). Probable chromatin remodeling factor.
CC {ECO:0000250|UniProtKB:Q8TDI0, ECO:0000303|PubMed:16547115}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00768}.
CC -!- SIMILARITY: Belongs to the SNF2/RAD54 helicase family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAC79140.1; Type=Erroneous gene model prediction;
CC Sequence=BAB08833.1; Type=Erroneous gene model prediction;
CC Sequence=BAC43019.1; Type=Erroneous initiation; Note=Truncated N-terminus.;
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DR EMBL; AB016874; BAB08833.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC002342; AAC79140.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002688; AED95164.1; -; Genomic_DNA.
DR EMBL; AK118410; BAC43019.1; ALT_INIT; mRNA.
DR RefSeq; NP_199293.3; NM_123848.4.
DR AlphaFoldDB; F4KBP5; -.
DR SMR; F4KBP5; -.
DR BioGRID; 19760; 8.
DR STRING; 3702.AT5G44800.1; -.
DR iPTMnet; F4KBP5; -.
DR PaxDb; F4KBP5; -.
DR PRIDE; F4KBP5; -.
DR ProteomicsDB; 247003; -.
DR EnsemblPlants; AT5G44800.1; AT5G44800.1; AT5G44800.
DR GeneID; 834510; -.
DR Gramene; AT5G44800.1; AT5G44800.1; AT5G44800.
DR KEGG; ath:AT5G44800; -.
DR Araport; AT5G44800; -.
DR TAIR; locus:2156364; AT5G44800.
DR eggNOG; KOG0383; Eukaryota.
DR HOGENOM; CLU_000994_1_1_1; -.
DR InParanoid; F4KBP5; -.
DR OMA; INICEDK; -.
DR OrthoDB; 54215at2759; -.
DR PRO; PR:F4KBP5; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; F4KBP5; baseline and differential.
DR Genevisible; F4KBP5; AT.
DR GO; GO:0000785; C:chromatin; IBA:GO_Central.
DR GO; GO:0005634; C:nucleus; IDA:TAIR.
DR GO; GO:0009506; C:plasmodesma; HDA:TAIR.
DR GO; GO:0042735; C:protein body; IPI:TAIR.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0016887; F:ATP hydrolysis activity; IBA:GO_Central.
DR GO; GO:0140658; F:ATP-dependent chromatin remodeler activity; IBA:GO_Central.
DR GO; GO:0003682; F:chromatin binding; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IBA:GO_Central.
DR GO; GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
DR GO; GO:0042393; F:histone binding; IBA:GO_Central.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0006338; P:chromatin remodeling; IBA:GO_Central.
DR Gene3D; 3.30.40.10; -; 1.
DR Gene3D; 3.40.50.10810; -; 1.
DR Gene3D; 3.40.50.300; -; 1.
DR InterPro; IPR016197; Chromo-like_dom_sf.
DR InterPro; IPR000953; Chromo/chromo_shadow_dom.
DR InterPro; IPR023780; Chromo_domain.
DR InterPro; IPR009463; DUF1087.
DR InterPro; IPR014001; Helicase_ATP-bd.
DR InterPro; IPR001650; Helicase_C.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR027417; P-loop_NTPase.
DR InterPro; IPR038718; SNF2-like_sf.
DR InterPro; IPR000330; SNF2_N.
DR InterPro; IPR019786; Zinc_finger_PHD-type_CS.
DR InterPro; IPR011011; Znf_FYVE_PHD.
DR InterPro; IPR001965; Znf_PHD.
DR InterPro; IPR019787; Znf_PHD-finger.
DR InterPro; IPR013083; Znf_RING/FYVE/PHD.
DR Pfam; PF00385; Chromo; 1.
DR Pfam; PF06465; DUF1087; 1.
DR Pfam; PF00271; Helicase_C; 1.
DR Pfam; PF00628; PHD; 1.
DR Pfam; PF00176; SNF2-rel_dom; 1.
DR SMART; SM00298; CHROMO; 2.
DR SMART; SM00487; DEXDc; 1.
DR SMART; SM01147; DUF1087; 1.
DR SMART; SM00490; HELICc; 1.
DR SMART; SM00249; PHD; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR SUPFAM; SSF52540; SSF52540; 2.
DR SUPFAM; SSF54160; SSF54160; 2.
DR SUPFAM; SSF57903; SSF57903; 1.
DR PROSITE; PS50013; CHROMO_2; 2.
DR PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR PROSITE; PS51194; HELICASE_CTER; 1.
DR PROSITE; PS01359; ZF_PHD_1; 1.
DR PROSITE; PS50016; ZF_PHD_2; 1.
PE 2: Evidence at transcript level;
KW ATP-binding; Chromatin regulator; Coiled coil; DNA-binding; Helicase;
KW Hydrolase; Metal-binding; Nucleotide-binding; Nucleus; Reference proteome;
KW Repeat; Zinc; Zinc-finger.
FT CHAIN 1..2223
FT /note="Protein CHROMATIN REMODELING 4"
FT /id="PRO_0000430852"
FT DOMAIN 531..587
FT /note="Chromo 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00053"
FT DOMAIN 601..663
FT /note="Chromo 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00053"
FT DOMAIN 701..878
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 1008..1167
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT ZN_FING 75..122
FT /note="PHD-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00146"
FT REGION 39..69
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 173..235
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 248..381
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 441..474
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1268..1300
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1341..1380
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1394..1463
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1483..1511
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1760..1779
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 2006..2223
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 1375..1402
FT /evidence="ECO:0000255"
FT COILED 2189..2215
FT /evidence="ECO:0000255"
FT MOTIF 829..832
FT /note="DEAH box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT MOTIF 902..909
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00768"
FT COMPBIAS 39..54
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 55..69
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 206..220
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 248..309
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 350..371
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1353..1380
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1395..1440
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1441..1455
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1483..1498
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 2039..2062
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 2074..2098
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 2124..2147
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 2157..2181
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 2194..2208
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 714..721
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
SQ SEQUENCE 2223 AA; 247919 MW; 050D0E390B672B70 CRC64;
MKDSGSEMIK RDWVMKQKRR KLPSILDILD QKVDSSMAFD SPEYTSSSKP SKQRLKTDST
PERNSSKRKG NDGNYFECVI CDLGGDLLCC DSCPRTYHTA CLNPPLKRIP NGKWICPKCS
PNSEALKPVN RLDAIAKRAR TKTKKRNSKA GPKCERASQI YCSSIISGEQ SSEKGKSISA
EESKSTGKEV YSSPMDGCST AELGHASADD RPDSSSHGED DLGKPVIPTA DLPSDAGLTL
LSCEDLSESK LSDTEKTHEA PVEKLEHASS EIVENKTVAE METGKGKRKK RKRELNDGES
LERCKTDKKR AKKSLSKVGS SSQTTKSPES SKKKKKKNRV TLKSLSKPQS KTETPEKVKK
LPKEERRAVR ATNKSSSCLE DTNSLPVGNL QVHRVLGCRI QGLTKTSLCS ALSDDLCSDN
LQATDQRDSL VQDTNAELVV AEDRIDSSSE TGKSSRDSRL RDKDMDDSAL GTEGMVEVKE
EMLSEDISNA TLSRHVDDED MKVSETHVSV ERELLEEAHQ ETGEKSTVAD EEIEEPVAAK
TSDLIGETVS YEFLVKWVDK SNIHNTWISE AELKGLAKRK LENYKAKYGT AVINICEDKW
KQPQRIVALR VSKEGNQEAY VKWTGLAYDE CTWESLEEPI LKHSSHLIDL FHQYEQKTLE
RNSKGNPTRE RGEVVTLTEQ PQELRGGALF AHQLEALNWL RRCWHKSKNV ILADEMGLGK
TVSASAFLSS LYFEFGVARP CLVLVPLSTM PNWLSEFSLW APLLNVVEYH GSAKGRAIIR
DYEWHAKNST GTTKKPTSYK FNVLLTTYEM VLADSSHLRG VPWEVLVVDE GHRLKNSESK
LFSLLNTFSF QHRVLLTGTP LQNNIGEMYN LLNFLQPSSF PSLSSFEERF HDLTSAEKVE
ELKKLVAPHM LRRLKKDAMQ NIPPKTERMV PVELTSIQAE YYRAMLTKNY QILRNIGKGV
AQQSMLNIVM QLRKVCNHPY LIPGTEPESG SLEFLHDMRI KASAKLTLLH SMLKVLHKEG
HRVLIFSQMT KLLDILEDYL NIEFGPKTFE RVDGSVAVAD RQAAIARFNQ DKNRFVFLLS
TRACGLGINL ATADTVIIYD SDFNPHADIQ AMNRAHRIGQ SKRLLVYRLV VRASVEERIL
QLAKKKLMLD QLFVNKSGSQ KEFEDILRWG TEELFNDSAG ENKKDTAESN GNLDVIMDLE
SKSRKKGGGL GDVYQDKCTE GNGKIVWDDI AIMKLLDRSN LQSASTDAAD TELDNDMLGS
VKPVEWNEET AEEQVGAESP ALVTDDTGEP SSERKDDDVV NFTEENEWDR LLRMRWEKYQ
SEEEAALGRG KRLRKAVSYR EAYAPHTSGP VNESGGEDEK EPEPELKKEY TPAGRALKEK
FTKLRERQKN LIARRNSVEE SLPSGNVDQV TEVANQDEES PTSMDLDDSK ASQQCDAQKR
KASSSDPKPD LLSQHHHGAE CLPSLPPNNL PVLGLCAPNF TQSESSRRNY SRPGSRQNRP
ITGPHFPFNL PQTSNLVERE ANDQEPPMGK LKPQNIKEEP FQQPLSNMDG WLPHRQFPPS
GDFERPRSSG AAFADFQEKF PLLNLPFDDK LLPRFPFQPR TMGTSHQDIM ANLSMRKRFE
GTGHSMQDLF GGTPMPFLPN MKIPPMDPPV FNQQEKDLPP LGLDQFPSAL SSIPENHRKV
LENIMLRTGS GIGHVQKKKT RVDAWSEDEL DSLWIGIRRH GYGNWETILR DPRLKFSKFK
TPEYLAARWE EEQRKFLDSL SSLPSKSSRT DKSTKSSLFP GLPQGIMNRA LHGKYATPPR
FQSHLTDIKL GFGDLASPLP LFEPSDHLGF RSEHFPPMAN LCTDNLPGEP SAGPSERAGT
STNIPNEKPF PLNSLGMGNL GSLGLDSLSS LNTLRAEEKR DAIKRGKLPL FLDMPLPQML
DSSNNVFLGR SANPSFLHPN RGLNPSNPMG RDIMGISSSE NKLPHWLRNV VTVPTVKSPE
PPTLPPTVSA IAQSVRVLYG EDSTTIPPFV IPEPPPPAPR DPRHSLRKKR KRKLHSSSQK
TTDIGSSSHN AVESSSQGNP QTSATPPLPP PSLAGETSGS SQPKLPPHNL NSTEPLSSEA
IIIPPPEEDS VIAAAPSEAP GPSLEGITGT TKSISLESQS SEPETINQDG DLDPETDEKV
ESERTPLHSD EKQEEQESEN ALNKQCEPIE AESQNTNAEE EAEAQEEDEE SMKMVTGNSL
SDD
