DEAHD_ARATH
ID DEAHD_ARATH Reviewed; 1237 AA.
AC Q9C813; Q0WU83; Q9C873;
DT 09-DEC-2015, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2001, sequence version 1.
DT 03-AUG-2022, entry version 147.
DE RecName: Full=ATP-dependent RNA helicase DEAH13;
DE EC=3.6.4.13;
DE AltName: Full=Protein FASCIATED STEM 4 {ECO:0000303|PubMed:19295920};
DE Short=AtFAS4 {ECO:0000303|PubMed:19295920};
GN Name=FAS4 {ECO:0000303|PubMed:19295920};
GN OrderedLocusNames=At1g33390 {ECO:0000312|Araport:AT1G33390};
GN ORFNames=F10C21.6 {ECO:0000312|EMBL:AAG51220.1},
GN T16O9.12 {ECO:0000312|EMBL:AAG51287.1};
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=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(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 reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 499-895.
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 IDENTIFICATION.
RX PubMed=19295920; DOI=10.4172/jpb.1000041;
RA Pogorelko G., Fursova O., Klimov E.;
RT "Identification and analysis of the Arabidopsis thaliana atFAS4 gene whose
RT overexpression results in the development of a fasciated stem.";
RL J. Proteomics Bioinform. 1:329-335(2008).
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 -!- 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 -!- MISCELLANEOUS: Overexpression results in the development of a fasciated
CC stem. {ECO:0000269|PubMed:19295920}.
CC -!- SIMILARITY: Belongs to the DEAD box helicase family. DEAH subfamily.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAG51287.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AC027035; AAG51287.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC051630; AAG51220.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE31588.1; -; Genomic_DNA.
DR EMBL; CP002684; ANM58243.1; -; Genomic_DNA.
DR EMBL; AK227299; BAE99315.1; -; mRNA.
DR PIR; E86457; E86457.
DR RefSeq; NP_001320693.1; NM_001333039.1.
DR RefSeq; NP_174605.1; NM_103064.4.
DR AlphaFoldDB; Q9C813; -.
DR SMR; Q9C813; -.
DR STRING; 3702.AT1G33390.1; -.
DR PaxDb; Q9C813; -.
DR PRIDE; Q9C813; -.
DR ProteomicsDB; 224074; -.
DR EnsemblPlants; AT1G33390.1; AT1G33390.1; AT1G33390.
DR EnsemblPlants; AT1G33390.2; AT1G33390.2; AT1G33390.
DR GeneID; 840232; -.
DR Gramene; AT1G33390.1; AT1G33390.1; AT1G33390.
DR Gramene; AT1G33390.2; AT1G33390.2; AT1G33390.
DR KEGG; ath:AT1G33390; -.
DR Araport; AT1G33390; -.
DR TAIR; locus:2007003; AT1G33390.
DR eggNOG; KOG0926; Eukaryota.
DR HOGENOM; CLU_001832_0_0_1; -.
DR InParanoid; Q9C813; -.
DR OMA; QICAAGF; -.
DR OrthoDB; 354219at2759; -.
DR PhylomeDB; Q9C813; -.
DR PRO; PR:Q9C813; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9C813; baseline and differential.
DR GO; GO:0005730; C:nucleolus; IBA:GO_Central.
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:0000462; P:maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IBA:GO_Central.
DR Gene3D; 3.40.50.300; -; 3.
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; Nucleotide-binding; Reference proteome.
FT CHAIN 1..1237
FT /note="ATP-dependent RNA helicase DEAH13"
FT /id="PRO_0000434939"
FT DOMAIN 251..443
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 605..776
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 1..51
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 115..148
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 543..585
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 876..910
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 367..370
FT /note="DEAH box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT COMPBIAS 115..130
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 564..585
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 876..909
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 264..271
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
SQ SEQUENCE 1237 AA; 139145 MW; 62F79DCDA0583E71 CRC64;
MASVVGDDCN LDVMPPRKKK NKGSNKMQDK LNSNNNTGSK KSRKRKLNSN VNTVACKSQK
RKLKKLEEDK EKEILFSKTA ELLDKYKISE DVSSLLQSSK VIGRSATKLE KRRRAMQLSK
AGVETEHSDE SVEQNDNDDD SCMDEPTTPE HVEIETPTFV TDSEQQLVHA DLMISAEESS
SKLEVDDTVD MIPLTTCRDD DEDSMDGLIE NEDVTVQGPR VPAFVVHVSR PAEVEETRKD
LPIVMMEQEI MEAINRHPAV IISGQTGCGK TTQVPQFLYE AGFGSKQFSS RSGIIGITQP
RRVAVLATAK RVAFELGVRL GKEVGFQVRY DKKIGENSSI KFMTDGILLR EIQNDFLLRR
YSVIILDEAH ERSLNTDILI GMLTRVIKIR QEYYEEQQKS LQSGGTVTSE CQITPLKLIL
MSATLRVEDF VSGKRLFPNI PPLIEVPTRQ YPVTIHFSKK TEIVDYIGEA YKKVMSIHKK
LPQGGILVFV TGQREVDYLC EKLRKSSKEL VVQAAKRDAY VKKKCDDGSF GGVDMKEIAE
AFDDDSNNQN SRFSSHGEDP SDIGDGNYDD DFEEEDMYES DEDRDWETVD DGFASSFVEE
GKLDALRAAF NALADKNGSV SAEPAKSIAA ENQEAEQVKN KFSPGKLRVL PLYAMLSPAA
QLRVFEEVEK EERLVVVATN VAETSLTIPG IKYVVDTGRV KVKNYDSKTG MESYEVDWIS
QASASQRAGR AGRTGPGHCY RLYSSAVFSN IFEESSLPEI MKVPVDGVIL LMKSMNIPKV
ENFPFPTPPE PSAIREAERC LKALEALDSN GGLTPLGKAM SHYPMSPRHS RMLLTVIQML
KETRNYSRAN LILGYAVAAV AALSLPNPLI MEFEGEKKNE SKDADKTVKQ EDKQRKKDRK
EKIKAARDRF SNPSSDALTV AYALHSFEVS ENGMGFCEAN GLHLKTMDEM SKLKDQLLRL
VFNCCKPSET EDSFSWTHGT IQDVEKSWRI TTSTSSKTPL LQNEEELLGE AICAGWADRV
ARKTRATEYQ ACAVQEPVFL HRWSSLINSA PELLVYSELL LTNRPYMHGA TRVRPEWLVK
HAKSLCVFSA PLKDPKPYYS SEEDRVLCWV VPSFGPHNWE LPAHSVAITE DRDRAAAFGC
ALLQGEVLTC LKSFRALLAG KPETLLEREA WGLERVGSLV MVLTEKKIDT LESLRKNWEQ
NPNVLYSEIE VWFQKKFRHR VKDLWQTMLK EAHVRRS
