Y3206_ARATH
ID Y3206_ARATH Reviewed; 823 AA.
AC F4JFJ3; Q8H0S6; Q94JY9; Q9SGA4;
DT 20-JAN-2016, integrated into UniProtKB/Swiss-Prot.
DT 28-JUN-2011, sequence version 1.
DT 03-AUG-2022, entry version 75.
DE RecName: Full=ATP-dependent DNA helicase At3g02060, chloroplastic;
DE EC=3.6.4.12 {ECO:0000305};
DE Flags: Precursor;
GN OrderedLocusNames=At3g02060 {ECO:0000312|Araport:AT3G02060};
GN ORFNames=F1C9.16 {ECO:0000312|EMBL:AAF14851.1};
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=11130713; DOI=10.1038/35048706;
RA Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B.,
RA Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M.,
RA Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V.,
RA Choisne N., Artiguenave F., Robert C., Brottier P., Wincker P.,
RA Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H.,
RA Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H.,
RA Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A.,
RA Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H.,
RA Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J.,
RA Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B.,
RA Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D.,
RA de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E.,
RA Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G.,
RA Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X.,
RA Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M.,
RA Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B.,
RA Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J.,
RA Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C.,
RA Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y.,
RA Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K.,
RA Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A.,
RA Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T.,
RA Watanabe A., Yamada M., Yasuda M., Tabata S.;
RT "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.";
RL Nature 408:820-822(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] (ISOFORMS 1 AND 2).
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 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=3.6.4.12;
CC Evidence={ECO:0000305};
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000255}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative initiation; Named isoforms=2;
CC Name=1;
CC IsoId=F4JFJ3-1; Sequence=Displayed;
CC Name=2;
CC IsoId=F4JFJ3-2; Sequence=VSP_058035;
CC -!- SIMILARITY: Belongs to the helicase family. {ECO:0000305}.
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DR EMBL; AC011664; AAF14851.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE73754.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE73755.1; -; Genomic_DNA.
DR EMBL; CP002686; ANM64108.1; -; Genomic_DNA.
DR EMBL; AF370520; AAK43897.1; -; mRNA.
DR EMBL; BT002188; AAN72199.1; -; mRNA.
DR RefSeq; NP_001078092.1; NM_001084623.1. [F4JFJ3-2]
DR RefSeq; NP_001326158.1; NM_001337379.1. [F4JFJ3-1]
DR RefSeq; NP_566160.1; NM_111072.2. [F4JFJ3-1]
DR AlphaFoldDB; F4JFJ3; -.
DR SMR; F4JFJ3; -.
DR STRING; 3702.AT3G02060.1; -.
DR PaxDb; F4JFJ3; -.
DR PRIDE; F4JFJ3; -.
DR ProMEX; F4JFJ3; -.
DR ProteomicsDB; 234631; -. [F4JFJ3-1]
DR EnsemblPlants; AT3G02060.1; AT3G02060.1; AT3G02060. [F4JFJ3-1]
DR EnsemblPlants; AT3G02060.2; AT3G02060.2; AT3G02060. [F4JFJ3-2]
DR EnsemblPlants; AT3G02060.3; AT3G02060.3; AT3G02060. [F4JFJ3-1]
DR GeneID; 821294; -.
DR Gramene; AT3G02060.1; AT3G02060.1; AT3G02060. [F4JFJ3-1]
DR Gramene; AT3G02060.2; AT3G02060.2; AT3G02060. [F4JFJ3-2]
DR Gramene; AT3G02060.3; AT3G02060.3; AT3G02060. [F4JFJ3-1]
DR KEGG; ath:AT3G02060; -.
DR Araport; AT3G02060; -.
DR TAIR; locus:2078673; AT3G02060.
DR eggNOG; KOG0344; Eukaryota.
DR InParanoid; F4JFJ3; -.
DR OMA; CYAVIPA; -.
DR OrthoDB; 142915at2759; -.
DR PRO; PR:F4JFJ3; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; F4JFJ3; baseline and differential.
DR GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0016887; F:ATP hydrolysis activity; IEA:RHEA.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003678; F:DNA helicase activity; IEA:UniProtKB-EC.
DR Gene3D; 3.40.50.300; -; 2.
DR Gene3D; 3.90.1150.50; -; 1.
DR InterPro; IPR036101; CarD-like/TRCF_dom_sf.
DR InterPro; IPR003711; CarD-like/TRCF_domain.
DR InterPro; IPR011545; DEAD/DEAH_box_helicase_dom.
DR InterPro; IPR014001; Helicase_ATP-bd.
DR InterPro; IPR001650; Helicase_C.
DR InterPro; IPR027417; P-loop_NTPase.
DR InterPro; IPR037235; TRCF-like_C_D7.
DR Pfam; PF02559; CarD_CdnL_TRCF; 1.
DR Pfam; PF00270; DEAD; 1.
DR Pfam; PF00271; Helicase_C; 1.
DR SMART; SM01058; CarD_TRCF; 1.
DR SMART; SM00487; DEXDc; 1.
DR SMART; SM00490; HELICc; 1.
DR SUPFAM; SSF141259; SSF141259; 1.
DR SUPFAM; SSF143517; SSF143517; 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 Alternative initiation; ATP-binding; Chloroplast; DNA-binding; Helicase;
KW Hydrolase; Nucleotide-binding; Plastid; Reference proteome;
KW Transit peptide.
FT TRANSIT 1..53
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 54..823
FT /note="ATP-dependent DNA helicase At3g02060, chloroplastic"
FT /id="PRO_0000435303"
FT DOMAIN 285..447
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 465..622
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT MOTIF 400..403
FT /note="DEEQ box"
FT /evidence="ECO:0000305"
FT BINDING 298..305
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT VAR_SEQ 1
FT /note="Missing (in isoform 2)"
FT /id="VSP_058035"
FT CONFLICT 240
FT /note="E -> G (in Ref. 3; AAK43897/AAN72199)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 823 AA; 93929 MW; 4718AF5231018B82 CRC64;
MMSLLPNPDP ITVPLVLKLC SFPPPRRLFS LRLRRFTRKS SSLLPLVAVS SLSATAAKPT
RWREKPELAE SDSISLLNER IRRDLGKRET ARPAMDSEEA EKYIHMVKEQ QERGLQKLKG
IRQGTKAAGD GAFSYKVDPY SLLSGDYVVH KKVGIGRFVG IKFDVPKDSS EPLEYVFIEY
ADGMAKLPLK QASRLLYRYN LPNETKRPRT LSRLSDTSVW ERRKTKGKVA IQKMVVDLME
LYLHRLRQKR YPYPKNPIMA DFAAQFPYNA TPDQKQAFLD VEKDLTERET PMDRLICGDV
GFGKTEVALR AIFCVVSTGK QAMVLAPTIV LAKQHYDVIS ERFSLYPHIK VGLLSRFQTK
AEKEEYLEMI KTGHLNIIVG THSLLGSRVV YSNLGLLVVD EEQRFGVKQK EKIASFKTSV
DVLTLSATPI PRTLYLALTG FRDASLISTP PPERIPIKTH LSSFRKEKVI EAIKNELDRG
GQVFYVLPRI KGLEEVMDFL EEAFPDIDIA MAHGKQYSKQ LEETMERFAQ GKIKILICTN
IVESGLDIQN ANTIIIQDVQ QFGLAQLYQL RGRVGRADKE AHAYLFYPDK SLLSDQALER
LSALEECREL GQGFQLAEKD MGIRGFGTIF GEQQTGDVGN VGIDLFFEML FESLSKVEEL
RIFSVPYDLV KIDININPRL PSEYVNYLEN PMEIIHEAEK AAEKDMWSLM QFTENLRRQY
GKEPYSMEII LKKLYVRRMA ADLGVNRIYA SGKMVVMKTN MSKKVFKLIT DSMTCDVYRS
SLIYEGDQIM AELLLELPRE QLLNWMFQCL SELHASLPAL IKY
