DEAH6_ARATH
ID DEAH6_ARATH Reviewed; 1044 AA.
AC F4IJV4; O82303; Q0WVI8;
DT 09-DEC-2015, integrated into UniProtKB/Swiss-Prot.
DT 28-JUN-2011, sequence version 1.
DT 03-AUG-2022, entry version 72.
DE RecName: Full=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH6 {ECO:0000305};
DE EC=3.6.4.13;
DE AltName: Full=DEAH RNA helicase homolog PRP2 {ECO:0000303|PubMed:17008405};
DE AltName: Full=Protein MATERNAL EFFECT EMBRYO ARREST 29 {ECO:0000303|PubMed:15634699};
GN Name=MEE29 {ECO:0000303|PubMed:15634699};
GN OrderedLocusNames=At2g35340 {ECO:0000312|Araport:AT2G35340};
GN ORFNames=T32F12.28 {ECO:0000312|EMBL:AAC36188.1};
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;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases.
RN [4]
RP DISRUPTION PHENOTYPE.
RX PubMed=15634699; DOI=10.1242/dev.01595;
RA Pagnussat G.C., Yu H.-J., Ngo Q.A., Rajani S., Mayalagu S., Johnson C.S.,
RA Capron A., Xie L.-F., Ye D., Sundaresan V.;
RT "Genetic and molecular identification of genes required for female
RT gametophyte development and function in Arabidopsis.";
RL Development 132:603-614(2005).
RN [5]
RP IDENTIFICATION, AND TISSUE SPECIFICITY.
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 [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 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 -!- TISSUE SPECIFICITY: Predominantly expressed in flowers.
CC {ECO:0000269|PubMed:17008405}.
CC -!- DISRUPTION PHENOTYPE: Embryo defective. Arrested at one-cell zygotic
CC stage. {ECO:0000269|PubMed:15634699}.
CC -!- SIMILARITY: Belongs to the DEAD box helicase family. DEAH subfamily.
CC PRP2 sub-subfamily. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAC36188.1; Type=Erroneous gene model prediction; Evidence={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; AC005314; AAC36188.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002685; AEC09096.1; -; Genomic_DNA.
DR EMBL; AK226760; BAE98860.1; -; mRNA.
DR PIR; D84767; D84767.
DR RefSeq; NP_181077.3; NM_129086.4.
DR AlphaFoldDB; F4IJV4; -.
DR SMR; F4IJV4; -.
DR STRING; 3702.AT2G35340.1; -.
DR PaxDb; F4IJV4; -.
DR PRIDE; F4IJV4; -.
DR ProteomicsDB; 224048; -.
DR EnsemblPlants; AT2G35340.1; AT2G35340.1; AT2G35340.
DR GeneID; 818101; -.
DR Gramene; AT2G35340.1; AT2G35340.1; AT2G35340.
DR KEGG; ath:AT2G35340; -.
DR Araport; AT2G35340; -.
DR TAIR; locus:2062492; AT2G35340.
DR eggNOG; KOG0923; Eukaryota.
DR HOGENOM; CLU_001832_7_1_1; -.
DR InParanoid; F4IJV4; -.
DR OrthoDB; 354219at2759; -.
DR PRO; PR:F4IJV4; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; F4IJV4; baseline and differential.
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:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0003724; F:RNA helicase activity; IEA:UniProtKB-EC.
DR GO; GO:0009793; P:embryo development ending in seed dormancy; IMP:TAIR.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR GO; GO:0008380; P:RNA splicing; IEA:UniProtKB-KW.
DR Gene3D; 3.40.50.300; -; 2.
DR InterPro; IPR011709; DEAD-box_helicase_OB_fold.
DR InterPro; IPR002464; DNA/RNA_helicase_DEAH_CS.
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; 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; PS00690; DEAH_ATP_HELICASE; 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..1044
FT /note="Probable pre-mRNA-splicing factor ATP-dependent RNA
FT helicase DEAH6"
FT /id="PRO_0000434935"
FT DOMAIN 414..577
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 599..775
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 99..134
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 152..211
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 524..527
FT /note="DEAH box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT COMPBIAS 167..211
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 427..434
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT CONFLICT 652
FT /note="Y -> C (in Ref. 3; BAE98860)"
FT /evidence="ECO:0000305"
FT CONFLICT 955
FT /note="H -> L (in Ref. 3; BAE98860)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1044 AA; 119127 MW; 91B39B4B07A67522 CRC64;
MGSNDLNTWV SDKLMVLLGF SQTAVVQYLI AMAKQSKSPG ELVRELVECG FSLSGDTRAF
AEEIYARAPR KTPGVNLYQQ QEAEAAMLLK KQKTFSLLEA DHDEDENNVK KQSASKTGKS
DKGQKRFRKK SEQLEDDDDE VVIVREDKRN VRRKVSEDED DGTESEEERL RDQREREELE
QHLRERDTAR TRKLTEPKMS KKEQEEFVRR DSAVDKGDIE SLRKFSWQEY MKKRKQKKVL
ELKDDIEDEP YLFGDEKLTE REIREFRYKR EIYELIKKST QEEDNVGEYR MPDAYDQQGS
VDQEKRFAVS VQRYRDMGSA EKMNPFAEQE AWEDHQIENA ALKFGAKNKE VSDNYEFVFE
DQIDFIKASV LAGDNYEDEM HAKPSQDSAG KSAFHMLQED RKALPIYTYR DQLLNAVKDH
QVLIIVGETG SGKTTQIPQY LHEAGYTKLG KVGCTQPRRV AAMSVAARVA QEMGGKLGHE
VGYSIRFEDC TSEKTILKYM TDGMLLRELL GEPDLGSYSV IIVDEAHERT LRTDILFGLV
KDIARARPDL KLLISSATMD AEKFSDFFDQ APIFRFPGRR YPVDICFTTA PEADYMDAAI
TTVLTIHVKE PLGDVLVFLP GQEEIEAVEE NLKHKIRGLG TKIRELIICP IYANLPSELQ
AKIFEPTPEG ARKVVLATNI AETSLTIDGI KYVVDPGFSK MKSYNPRTGM ESLLVTPISK
ASATQRTGRA GRTSPGKCYR LYTAFNYYND LEDNTVPEIQ RTNLASVVLS LKSLGIHNLL
NFDFMDPPPS EALIKSLELL FALGALNQLG ELTKAGRRMA EFPLDPMLSK MIVVSDKYKC
SDEIISIAAM LSIGPSIFYR PKDKQVHADN AMKNFHVGNV GDHIAFLKIY NSWKETNYST
QWCYENYIQV RSMKRARDIR DQLEGLLERV EIDVSSNANE LDSIRKSIVA GFFPHTAKLQ
KNGSYRTVKH PQTVHIHPAS GLSQVLPRWV VYHQLVLTSK EYMRQVTELK PEWLIEIAPH
YYQLKDVEDA TSKKMPKTSG RAVV
