PRP43_ARATH
ID PRP43_ARATH Reviewed; 729 AA.
AC O22899;
DT 15-DEC-1998, integrated into UniProtKB/Swiss-Prot.
DT 01-JAN-1998, sequence version 1.
DT 03-AUG-2022, entry version 157.
DE RecName: Full=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH3 {ECO:0000305};
DE EC=3.6.4.13;
DE AltName: Full=DEAH RNA helicase homolog PRP43 {ECO:0000303|PubMed:17008405};
GN OrderedLocusNames=At2g47250 {ECO:0000312|Araport:AT2G47250};
GN ORFNames=T08I13.9 {ECO:0000312|EMBL:AAB63825.1};
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;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
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 reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP IDENTIFICATION.
RX PubMed=17008405; DOI=10.1073/pnas.0606536103;
RA Herr A.J., Molnar A., Jones A., Baulcombe D.C.;
RT "Defective RNA processing enhances RNA silencing and influences flowering
RT of Arabidopsis.";
RL Proc. Natl. Acad. Sci. U.S.A. 103:14994-15001(2006).
RN [5]
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: May be involved in pre-mRNA splicing. {ECO:0000305}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=ATP + H2O = ADP + H(+) + phosphate; Xref=Rhea:RHEA:13065,
CC ChEBI:CHEBI:15377, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616,
CC ChEBI:CHEBI:43474, ChEBI:CHEBI:456216; EC=3.6.4.13;
CC -!- SIMILARITY: Belongs to the DEAD box helicase family. DEAH subfamily.
CC PRP43 sub-subfamily. {ECO:0000305}.
CC -!- WEB RESOURCE: Name=Splicing Related Gene Database;
CC URL="http://www.plantgdb.org/SRGD/index.php";
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DR EMBL; AC002337; AAB63825.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC10820.1; -; Genomic_DNA.
DR EMBL; AY128301; AAM91108.1; -; mRNA.
DR EMBL; BT004534; AAO42780.1; -; mRNA.
DR PIR; H84912; H84912.
DR RefSeq; NP_182247.1; NM_130293.4.
DR AlphaFoldDB; O22899; -.
DR SMR; O22899; -.
DR BioGRID; 4673; 9.
DR STRING; 3702.AT2G47250.1; -.
DR PaxDb; O22899; -.
DR PRIDE; O22899; -.
DR ProteomicsDB; 226474; -.
DR EnsemblPlants; AT2G47250.1; AT2G47250.1; AT2G47250.
DR GeneID; 819338; -.
DR Gramene; AT2G47250.1; AT2G47250.1; AT2G47250.
DR KEGG; ath:AT2G47250; -.
DR Araport; AT2G47250; -.
DR TAIR; locus:2065210; AT2G47250.
DR eggNOG; KOG0925; Eukaryota.
DR HOGENOM; CLU_001832_5_11_1; -.
DR InParanoid; O22899; -.
DR OMA; RDCDERS; -.
DR OrthoDB; 354219at2759; -.
DR PhylomeDB; O22899; -.
DR PRO; PR:O22899; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; O22899; baseline and differential.
DR Genevisible; O22899; AT.
DR GO; GO:0009941; C:chloroplast envelope; HDA:TAIR.
DR GO; GO:0005681; C:spliceosomal complex; IEA:UniProtKB-KW.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0016887; F:ATP hydrolysis activity; IEA:RHEA.
DR GO; GO:0003729; F:mRNA binding; IDA:TAIR.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0003724; F:RNA helicase activity; IEA:UniProtKB-EC.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR GO; GO:0008380; P:RNA splicing; IEA:UniProtKB-KW.
DR CDD; cd17973; DEXHc_DHX15; 1.
DR Gene3D; 3.40.50.300; -; 2.
DR InterPro; IPR011709; DEAD-box_helicase_OB_fold.
DR InterPro; IPR011545; DEAD/DEAH_box_helicase_dom.
DR InterPro; IPR044756; DHX15_DEXHc.
DR InterPro; IPR007502; Helicase-assoc_dom.
DR InterPro; IPR014001; Helicase_ATP-bd.
DR InterPro; IPR001650; Helicase_C.
DR InterPro; IPR027417; P-loop_NTPase.
DR Pfam; PF00270; DEAD; 1.
DR Pfam; PF04408; HA2; 1.
DR Pfam; PF00271; Helicase_C; 1.
DR Pfam; PF07717; OB_NTP_bind; 1.
DR SMART; SM00487; DEXDc; 1.
DR SMART; SM00847; HA2; 1.
DR SMART; SM00490; HELICc; 1.
DR SUPFAM; SSF52540; SSF52540; 1.
DR PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR PROSITE; PS51194; HELICASE_CTER; 1.
PE 2: Evidence at transcript level;
KW ATP-binding; Helicase; Hydrolase; mRNA processing; mRNA splicing;
KW Nucleotide-binding; Reference proteome; Spliceosome.
FT CHAIN 1..729
FT /note="Probable pre-mRNA-splicing factor ATP-dependent RNA
FT helicase DEAH3"
FT /id="PRO_0000055141"
FT DOMAIN 75..244
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 269..449
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT MOTIF 191..194
FT /note="DEAH box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT BINDING 88..95
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
SQ SEQUENCE 729 AA; 82654 MW; EF63E69FD13E2B59 CRC64;
MGTERKRKVS LFDVMEDPSL SSKNTKSNGL GLAAAAGGGS NLINKWNGKA YSQRYFEILE
KRRDLPVWLQ KDDFLNTLNS NQTLILVGET GSGKTTQIPQ FVLDAVVADN SDKGRKWLVG
CTQPRRVAAM SVSRRVADEM DVSIGEEVGY SIRFEDCTSS RTMLKYLTDG MLLREAMADP
LLERYKVIIL DEAHERTLAT DVLFGLLKEV LRNRPDLKLV VMSATLEAEK FQEYFSGAPL
MKVPGRLHPV EIFYTQEPER DYLEAAIRTV VQIHMCEPPG DILVFLTGEE EIEDACRKIN
KEVSNLGDQV GPVKVVPLYS TLPPAMQQKI FDPAPVPLTE GGPAGRKIVV STNIAETSLT
IDGIVYVIDP GFAKQKVYNP RIRVESLLVS PISKASAHQR SGRAGRTRPG KCFRLYTEKS
FNNDLQPQTY PEILRSNLAN TVLTLKKLGI DDLVHFDFMD PPAPETLMRA LEVLNYLGAL
DDEGNLTKTG EIMSEFPLDP QMSKMLIVSP EFNCSNEILS VSAMLSVPNC FVRPREAQKA
ADEAKARFGH IDGDHLTLLN VYHAYKQNNE DPNWCFENFV NNRAMKSADN VRQQLVRIMS
RFNLKMCSTD FNSRDYYVNI RKAMLAGYFM QVAHLERTGH YLTVKDNQVV HLHPSNCLDH
KPEWVIYNEY VLTTRNFIRT VTDIRGEWLV DVAQHYYDLS NFPNCEAKRA LEKLYKKRER
EKNESKNRK
