DEAH4_ARATH
ID DEAH4_ARATH Reviewed; 700 AA.
AC Q93Y16; Q9C6M8; Q9C7G2;
DT 09-DEC-2015, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 143.
DE RecName: Full=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH4 {ECO:0000305};
DE EC=3.6.4.13;
DE AltName: Full=DEAH RNA helicase homolog PRP22 {ECO:0000305};
GN OrderedLocusNames=At1g27900 {ECO:0000312|Araport:AT1G27900};
GN ORFNames=F13K9.28 {ECO:0000312|EMBL:AAG51496.1},
GN F28L5.6 {ECO:0000312|EMBL:AAG50585.1};
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 ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, CLEAVAGE OF INITIATOR
RP METHIONINE [LARGE SCALE ANALYSIS], AND IDENTIFICATION BY MASS SPECTROMETRY
RP [LARGE SCALE ANALYSIS].
RX PubMed=22223895; DOI=10.1074/mcp.m111.015131;
RA Bienvenut W.V., Sumpton D., Martinez A., Lilla S., Espagne C., Meinnel T.,
RA Giglione C.;
RT "Comparative large-scale characterisation of plant vs. mammal proteins
RT reveals similar and idiosyncratic N-alpha acetylation features.";
RL Mol. Cell. Proteomics 11:M111.015131-M111.015131(2012).
RN [4]
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 PRP22 sub-subfamily. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAG50585.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAG51496.1; 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; AC069471; AAG51496.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC079280; AAG50585.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE30889.1; -; Genomic_DNA.
DR EMBL; AY054692; AAK96883.1; -; mRNA.
DR EMBL; AY128718; AAM91118.1; -; mRNA.
DR PIR; C86404; C86404.
DR RefSeq; NP_564296.1; NM_102555.3.
DR AlphaFoldDB; Q93Y16; -.
DR SMR; Q93Y16; -.
DR STRING; 3702.AT1G27900.1; -.
DR iPTMnet; Q93Y16; -.
DR PaxDb; Q93Y16; -.
DR PRIDE; Q93Y16; -.
DR ProteomicsDB; 224564; -.
DR EnsemblPlants; AT1G27900.1; AT1G27900.1; AT1G27900.
DR GeneID; 839683; -.
DR Gramene; AT1G27900.1; AT1G27900.1; AT1G27900.
DR KEGG; ath:AT1G27900; -.
DR Araport; AT1G27900; -.
DR TAIR; locus:2010549; AT1G27900.
DR eggNOG; KOG0922; Eukaryota.
DR HOGENOM; CLU_001832_5_11_1; -.
DR InParanoid; Q93Y16; -.
DR OMA; VTSKPFM; -.
DR OrthoDB; 354219at2759; -.
DR PhylomeDB; Q93Y16; -.
DR PRO; PR:Q93Y16; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q93Y16; 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: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; IPR003593; AAA+_ATPase.
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; PF13401; AAA_22; 1.
DR Pfam; PF04408; HA2; 1.
DR Pfam; PF00271; Helicase_C; 1.
DR Pfam; PF07717; OB_NTP_bind; 1.
DR SMART; SM00382; AAA; 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 1: Evidence at protein level;
KW Acetylation; ATP-binding; Helicase; Hydrolase; mRNA processing;
KW mRNA splicing; Nucleotide-binding; Reference proteome; Spliceosome.
FT INIT_MET 1
FT /note="Removed"
FT /evidence="ECO:0007744|PubMed:22223895"
FT CHAIN 2..700
FT /note="Probable pre-mRNA-splicing factor ATP-dependent RNA
FT helicase DEAH4"
FT /id="PRO_0000434934"
FT DOMAIN 14..178
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 200..377
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 463..486
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 654..682
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 124..127
FT /note="DEAH box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT COMPBIAS 465..480
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 27..34
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT MOD_RES 2
FT /note="N-acetylalanine"
FT /evidence="ECO:0007744|PubMed:22223895"
SQ SEQUENCE 700 AA; 78370 MW; E38010F6593557F6 CRC64;
MANLPILQFE EKIVETVEKN SVVVIIGETG SGKSTQLSQI LHRHGYTKSG VIAITQPRRV
AAVSVARRVA QELDVPLGED VGYAIRFEDR TTSKTRIKYL TDGVLLRESL SNPMLDDYSV
IILDEAHERS LNTDILLGLV KRLVRIRASN FKVLITSATL DGEKVSEFFS GCPVLNVPGK
LYPVEILYSK ERPVSYIESS LKVAIDIHVR EPEGDILIFM TGQDDIEKLV SRLEEKVRSL
AEGSCMDAII YPLHGSLPPE MQVRVFSPPP PNCRRFIVST NIAETSLTVD GVVYVIDSGY
VKQRQYNPSS GMFSLDVIQI SKVQANQRAG RAGRTRPGKC YRLYPLAVYR DDFLDATIPE
IQRTSLAGSV LYLKSLDLPD IDILKFDFLD APSSESLEDA LKQLYFIDAI DENGAITRIG
RTMSDLPLEP SLSRTLIEAN ETGCLSQALT VVAMLSAETT LLPARSKPSE KKRKHDEDSN
LPNGSGYGDH IQLLQIFESW DRTNYDPVWC KENGMQVRGM VFVKDVRRQL CQIMQKISKD
RLEVGADGRK SSSRDDYRKL RKALCVGNAN QIAERMLRHN GYRTLSFQSQ LVQVHPSSVL
SADNDGMMPN YVVYHELIST TRPFMRNVCA VDMAWVAPIK RKIEKLNVRK LSGGPAPSFK
VPEEKTELSK NNAETPAVSE NVESRIEAAR ERFLARKGQK
