PARNL_ARATH
ID PARNL_ARATH Reviewed; 618 AA.
AC Q8W4C3; Q9LSV7;
DT 05-MAY-2009, integrated into UniProtKB/Swiss-Prot.
DT 01-MAR-2002, sequence version 1.
DT 03-AUG-2022, entry version 112.
DE RecName: Full=Poly(A)-specific ribonuclease PARN-like;
DE EC=3.1.13.4;
DE AltName: Full=Polyadenylate-specific ribonuclease-like protein;
GN OrderedLocusNames=At3g25430; ORFNames=MWL2.4;
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=10819329; DOI=10.1093/dnares/7.2.131;
RA Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence
RT features of the regions of 4,504,864 bp covered by sixty P1 and TAC
RT clones.";
RL DNA Res. 7:131-135(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].
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).
CC -!- FUNCTION: 3'-exoribonuclease that has a preference for poly(A) tails of
CC mRNAs, thereby efficiently degrading poly(A) tails. Exonucleolytic
CC degradation of the poly(A) tail is often the first step in the decay of
CC eukaryotic mRNAs (By similarity). {ECO:0000250}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=Exonucleolytic cleavage of poly(A) to 5'-AMP.; EC=3.1.13.4;
CC -!- COFACTOR:
CC Name=a divalent metal cation; Xref=ChEBI:CHEBI:60240;
CC Evidence={ECO:0000250|UniProtKB:O95453};
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}. Cytoplasm {ECO:0000250}.
CC -!- SIMILARITY: Belongs to the CAF1 family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB01314.1; Type=Erroneous gene model prediction; Note=The predicted gene has been split into 2 genes: At3g25430 and At3g25440.; Evidence={ECO:0000305};
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DR EMBL; AB025639; BAB01314.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; AEE77010.1; -; Genomic_DNA.
DR EMBL; AY062664; AAL32742.1; -; mRNA.
DR EMBL; BT008385; AAP37744.1; -; mRNA.
DR RefSeq; NP_189170.1; NM_113439.3.
DR AlphaFoldDB; Q8W4C3; -.
DR SMR; Q8W4C3; -.
DR STRING; 3702.AT3G25430.1; -.
DR PaxDb; Q8W4C3; -.
DR ProteomicsDB; 236357; -.
DR EnsemblPlants; AT3G25430.1; AT3G25430.1; AT3G25430.
DR GeneID; 822127; -.
DR Gramene; AT3G25430.1; AT3G25430.1; AT3G25430.
DR KEGG; ath:AT3G25430; -.
DR Araport; AT3G25430; -.
DR TAIR; locus:2094533; AT3G25430.
DR eggNOG; KOG1990; Eukaryota.
DR HOGENOM; CLU_020384_1_0_1; -.
DR InParanoid; Q8W4C3; -.
DR OMA; SRVKHWK; -.
DR OrthoDB; 1402758at2759; -.
DR PhylomeDB; Q8W4C3; -.
DR PRO; PR:Q8W4C3; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q8W4C3; baseline and differential.
DR GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0000175; F:3'-5'-exoribonuclease activity; IBA:GO_Central.
DR GO; GO:0043169; F:cation binding; ISS:UniProtKB.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0004535; F:poly(A)-specific ribonuclease activity; IEA:UniProtKB-EC.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR GO; GO:1905392; P:plant organ morphogenesis; IMP:TAIR.
DR Gene3D; 3.30.420.10; -; 2.
DR InterPro; IPR006941; RNase_CAF1.
DR InterPro; IPR012337; RNaseH-like_sf.
DR InterPro; IPR036397; RNaseH_sf.
DR Pfam; PF04857; CAF1; 1.
DR SUPFAM; SSF53098; SSF53098; 1.
PE 2: Evidence at transcript level;
KW Cytoplasm; Exonuclease; Hydrolase; Metal-binding; mRNA processing;
KW Nuclease; Nucleus; Reference proteome; RNA-binding.
FT CHAIN 1..618
FT /note="Poly(A)-specific ribonuclease PARN-like"
FT /id="PRO_0000371550"
FT REGION 588..607
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 588..604
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 54
FT /ligand="a divalent metal cation"
FT /ligand_id="ChEBI:CHEBI:60240"
FT /evidence="ECO:0000250|UniProtKB:O95453"
FT BINDING 56
FT /ligand="a divalent metal cation"
FT /ligand_id="ChEBI:CHEBI:60240"
FT /evidence="ECO:0000250|UniProtKB:O95453"
FT BINDING 332
FT /ligand="a divalent metal cation"
FT /ligand_id="ChEBI:CHEBI:60240"
FT /evidence="ECO:0000250|UniProtKB:O95453"
FT BINDING 418
FT /ligand="a divalent metal cation"
FT /ligand_id="ChEBI:CHEBI:60240"
FT /evidence="ECO:0000250|UniProtKB:O95453"
SQ SEQUENCE 618 AA; 68807 MW; 1363FD2AA57F5082 CRC64;
MQRRFLSSIS ATAGNTKTLN QGRWSVKQVK KSNFHVTLDE IRTSIDSSDF IALSLQNTGS
YAAAWHRVSA IDTPQTSYLK AKYAAERYQI LQFALCPFSL QGSKLTVHPY NFHLFPRDEL
KCGMPSYSFS CQASRLTAMA REGFDFNICI YEGISYLSRA QESASKFLSE NPILADSVTV
SSSPATVADT VFVGRIRSRV KNWRQSCIDS GSKTGDDDLV SSLRRLVLGS EQYGSRLCLT
IDVCSERQVQ LILEMLTEFS DDVVPLLVAS KSRGTQAVRT VFMSSKEDKD LFKRELKDLE
KEENRRVRGF REVVDFISSS QKPVVSQNYL SDFTSIHAKF LGPLPSNVDD FSSSLSSAFP
NVVDLSQFMK EISPLSNISN LPAAMSSLNR FFAPVDVEVA NQGCPVKLDE GHQSHGQNAV
MISQLFAKLC TIQKSDLSTI QSNEDFQALA SDEHANSVTS CSKNAGDENV KVWSKNSRRV
SSENLVFIWG LGKKMTAAKL KNVLQKSHPV FAREFDVKYI DRSSAILVFW ESGPSETFLS
AVNNEEQLDG SLREMVAEGL RGAGYETYKR ACRLGFWEAD LAESLDKALE SSDTDPDSDT
KPSEIDWSNE LAINFDEL
