RP6L3_ARATH
ID RP6L3_ARATH Reviewed; 892 AA.
AC A9LLI8; F4ITQ6; Q9ZV70;
DT 16-SEP-2015, integrated into UniProtKB/Swiss-Prot.
DT 05-FEB-2008, sequence version 1.
DT 03-AUG-2022, entry version 86.
DE RecName: Full=Protein RRP6-like 3 {ECO:0000303|PubMed:18285452};
DE Short=AtRRP6L3 {ECO:0000303|PubMed:18285452};
GN Name=RRP6L3 {ECO:0000303|PubMed:18285452};
GN OrderedLocusNames=At2g32415 {ECO:0000312|Araport:AT2G32415};
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 [MRNA] (ISOFORM 1), AND SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia;
RX PubMed=18285452; DOI=10.1128/mcb.02064-07;
RA Lange H., Holec S., Cognat V., Pieuchot L., Le Ret M., Canaday J.,
RA Gagliardi D.;
RT "Degradation of a polyadenylated rRNA maturation by-product involves one of
RT the three RRP6-like proteins in Arabidopsis thaliana.";
RL Mol. Cell. Biol. 28:3038-3044(2008).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] (ISOFORM 2).
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 [3]
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).
CC -!- SUBCELLULAR LOCATION: Cytoplasm, cytosol {ECO:0000269|PubMed:18285452}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=A9LLI8-1; Sequence=Displayed;
CC Name=2;
CC IsoId=A9LLI8-2; Sequence=VSP_057830;
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to a competing acceptor splice
CC site. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAC69936.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; EU240664; ABX52081.1; -; mRNA.
DR EMBL; AC005700; AAC69936.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002685; AEC08682.1; -; Genomic_DNA.
DR EMBL; CP002685; ANM61513.1; -; Genomic_DNA.
DR PIR; H84732; H84732.
DR RefSeq; NP_001323729.1; NM_001336395.1. [A9LLI8-1]
DR RefSeq; NP_850189.5; NM_179858.5. [A9LLI8-2]
DR AlphaFoldDB; A9LLI8; -.
DR SMR; A9LLI8; -.
DR STRING; 3702.AT2G32415.1; -.
DR iPTMnet; A9LLI8; -.
DR PaxDb; A9LLI8; -.
DR PRIDE; A9LLI8; -.
DR ProteomicsDB; 228220; -. [A9LLI8-1]
DR EnsemblPlants; AT2G32415.1; AT2G32415.1; AT2G32415. [A9LLI8-2]
DR EnsemblPlants; AT2G32415.3; AT2G32415.3; AT2G32415. [A9LLI8-1]
DR GeneID; 817803; -.
DR Gramene; AT2G32415.1; AT2G32415.1; AT2G32415. [A9LLI8-2]
DR Gramene; AT2G32415.3; AT2G32415.3; AT2G32415. [A9LLI8-1]
DR KEGG; ath:AT2G32415; -.
DR Araport; AT2G32415; -.
DR TAIR; locus:504955936; AT2G32415.
DR eggNOG; KOG2206; Eukaryota.
DR eggNOG; KOG4373; Eukaryota.
DR OMA; CSAILET; -.
DR OrthoDB; 692844at2759; -.
DR PhylomeDB; A9LLI8; -.
DR PRO; PR:A9LLI8; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; A9LLI8; baseline and differential.
DR GO; GO:0005737; C:cytoplasm; IDA:TAIR.
DR GO; GO:0005829; C:cytosol; IEA:UniProtKB-SubCell.
DR GO; GO:0000176; C:nuclear exosome (RNase complex); IBA:GO_Central.
DR GO; GO:0005730; C:nucleolus; IBA:GO_Central.
DR GO; GO:0000175; F:3'-5'-exoribonuclease activity; IBA:GO_Central.
DR GO; GO:0000166; F:nucleotide binding; IEA:InterPro.
DR GO; GO:0003727; F:single-stranded RNA binding; IBA:GO_Central.
DR GO; GO:0000467; P:exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IBA:GO_Central.
DR GO; GO:0071044; P:histone mRNA catabolic process; IBA:GO_Central.
DR GO; GO:0071040; P:nuclear polyadenylation-dependent antisense transcript catabolic process; IBA:GO_Central.
DR GO; GO:0071039; P:nuclear polyadenylation-dependent CUT catabolic process; IBA:GO_Central.
DR GO; GO:0071035; P:nuclear polyadenylation-dependent rRNA catabolic process; IBA:GO_Central.
DR GO; GO:0071036; P:nuclear polyadenylation-dependent snoRNA catabolic process; IBA:GO_Central.
DR GO; GO:0071037; P:nuclear polyadenylation-dependent snRNA catabolic process; IBA:GO_Central.
DR GO; GO:0071038; P:nuclear polyadenylation-dependent tRNA catabolic process; IBA:GO_Central.
DR GO; GO:0071051; P:polyadenylation-dependent snoRNA 3'-end processing; IBA:GO_Central.
DR Gene3D; 1.10.150.80; -; 1.
DR Gene3D; 3.30.420.10; -; 1.
DR InterPro; IPR002562; 3'-5'_exonuclease_dom.
DR InterPro; IPR010997; HRDC-like_sf.
DR InterPro; IPR002121; HRDC_dom.
DR InterPro; IPR044876; HRDC_dom_sf.
DR InterPro; IPR012337; RNaseH-like_sf.
DR InterPro; IPR036397; RNaseH_sf.
DR InterPro; IPR045092; Rrp6-like.
DR PANTHER; PTHR12124; PTHR12124; 1.
DR Pfam; PF01612; DNA_pol_A_exo1; 1.
DR Pfam; PF00570; HRDC; 1.
DR SMART; SM00474; 35EXOc; 1.
DR SUPFAM; SSF47819; SSF47819; 1.
DR SUPFAM; SSF53098; SSF53098; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Cytoplasm; Reference proteome.
FT CHAIN 1..892
FT /note="Protein RRP6-like 3"
FT /id="PRO_0000433632"
FT DOMAIN 119..287
FT /note="3'-5' exonuclease"
FT /evidence="ECO:0000255"
FT DOMAIN 350..436
FT /note="HRDC"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00328"
FT REGION 785..811
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 292
FT /note="Missing (in isoform 2)"
FT /id="VSP_057830"
SQ SEQUENCE 892 AA; 101390 MW; 6EAB339F2E2E044A CRC64;
MELKEKAKVV ITVASLVAVT ILFVTEYRRR RQRRKQTSSL SSCYLHSELK PQFGFKRVLA
DNSYSEFKHL KLVDASSSSL EKPSNGHPYE TEITVLLENP QIEFGFLRGE CSLEMSDSYV
WVETESQLKE LAEILAKEQV FAVDTEQHSL RSFLGFTALI QISTHEEDFL VDTIALHDVM
SILRPVFSDP NICKVFHGAD NDVIWLQRDF HIYVVNMFDT AKACEVLSKP QRSLAYLLET
VCGVATNKLL QREDWRQRPL SEEMVRYART DAHYLLYIAD SLTTELKQLA TEDSSSPDDR
FHFLLEASRR SNMTCLQLYT KETEDFPGSA ASSSIIYRHL NGHGDKSNIS LNAEELVRKL
CAWRDLMGRI HDESTRYVLS DQAIVGLSCK QPTTTEEIYD TIAHIDLATE SSPSLSSSVQ
SPYPVICSHL DDIYKMILDK LAKLDDLLPV VLKKCLGTNG TCPISVFNYS LLVNFKTKLS
SHSAPKQNGH KNFKQQFTRK ASRELFVKKF SCKAPVYHNC RIYANDGRLL CYCDKRKLEW
YLNRGLAKLV EENPPAIMLL FEPKGRPEDE GNDFYIQTKR NICVGCGEGK HYLRYRIIPS
CYRVHFPEHL KSHRSHDIVL LCVDCHEVAH AAAERYKKQI ATEFGIPLFV RRVLDSKEAQ
GTSSLVEDES TGDSEDAGVS PLHLRSAAMA LLRHGNRMPS SRREELLQTV KMYYGGRDLS
EEDLEKALLI GLSPHERRKL ERKKGVSFKH SAEVAGMDKQ EDENNDGEAL ADFEKIMTVE
RSTVVDDSGD GTSEGDGAKE LNDTQCNGNT LHQQNSKLSL LGHGPHGKQI VEYLLREHGE
DGVRDFCQRW RKVFVDAVHP RHLPGGWNVS HSGRRDFGEF SVYNPTKRLS TE
