CFIS2_ARATH
ID CFIS2_ARATH Reviewed; 200 AA.
AC Q8GXS3; O65606; Q570Y1; Q9M0K5;
DT 26-NOV-2014, integrated into UniProtKB/Swiss-Prot.
DT 01-MAR-2003, sequence version 1.
DT 25-MAY-2022, entry version 127.
DE RecName: Full=Pre-mRNA cleavage factor Im 25 kDa subunit 2 {ECO:0000303|PubMed:18479511};
GN Name=CFIS2 {ECO:0000303|PubMed:18479511};
GN OrderedLocusNames=At4g25550 {ECO:0000312|Araport:AT4G25550};
GN ORFNames=M7J2.80 {ECO:0000312|EMBL:BAC42701.1};
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 {ECO:0000312|EMBL:BAC42701.1};
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617198; DOI=10.1038/47134;
RA Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T.,
RA Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B.,
RA Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M.,
RA de Simone V., Obermaier B., Mache R., Mueller M., Kreis M., Delseny M.,
RA Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D.,
RA Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J.,
RA Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B.,
RA Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J.,
RA Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R.,
RA Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M.,
RA Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P.,
RA Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C.,
RA Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J.,
RA Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S.,
RA Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A.,
RA Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M.,
RA Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D.,
RA Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E.,
RA Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S.,
RA Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R.,
RA Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M.,
RA Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E.,
RA Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P.,
RA Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K.,
RA Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K.,
RA de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K.,
RA Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M.,
RA Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G.,
RA Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K.,
RA Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K.,
RA Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W.,
RA Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H.,
RA Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B.,
RA Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J.,
RA Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K.,
RA O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N.,
RA Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A.,
RA Martienssen R., McCombie W.R.;
RT "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana.";
RL Nature 402:769-777(1999).
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] (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=11910074; DOI=10.1126/science.1071006;
RA Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T.,
RA Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y.,
RA Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K.,
RA Shinagawa A., Shinozaki K.;
RT "Functional annotation of a full-length Arabidopsis cDNA collection.";
RL Science 296:141-145(2002).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
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 [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
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 (MAR-2005) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP INTERACTION WITH FIPS5; PAPS4 AND CPSF30, GENE FAMILY, AND NOMENCLATURE.
RX PubMed=18479511; DOI=10.1186/1471-2164-9-220;
RA Hunt A.G., Xu R., Addepalli B., Rao S., Forbes K.P., Meeks L.R., Xing D.,
RA Mo M., Zhao H., Bandyopadhyay A., Dampanaboina L., Marion A.,
RA Von Lanken C., Li Q.Q.;
RT "Arabidopsis mRNA polyadenylation machinery: comprehensive analysis of
RT protein-protein interactions and gene expression profiling.";
RL BMC Genomics 9:220-220(2008).
CC -!- FUNCTION: Component of the cleavage factor Im (CFIm) complex that plays
CC a key role in pre-mRNA 3'-processing. Involved in association with
CC CPSF6 or CPSF7 in pre-MRNA 3'-end poly(A) site cleavage and poly(A)
CC addition. NUDT21/CPSF5 binds to cleavage and polyadenylation RNA
CC substrates. The homodimer mediates simultaneous sequence-specific
CC recognition of two 5'-UGUA-3' elements within the pre-mRNA. Binds to,
CC but does not hydrolyze mono- and di-adenosine nucleotides. May have a
CC role in mRNA export. {ECO:0000250|UniProtKB:O43809}.
CC -!- SUBUNIT: Homodimer. Component of the cleavage factor Im (CFIm) complex
CC (By similarity). Forms a complex with cleavage and polyadenylation
CC specificity factor (CPSF) subunits FIPS5, PAPS4 and CPSF30
CC (PubMed:18479511). {ECO:0000250|UniProtKB:O43809,
CC ECO:0000269|PubMed:18479511}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250|UniProtKB:O43809}. Note=In
CC punctate subnuclear structures localized adjacent to nuclear speckles,
CC called paraspeckles. {ECO:0000250|UniProtKB:O43809}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q8GXS3-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q8GXS3-2; Sequence=VSP_057237;
CC -!- SIMILARITY: Belongs to the Nudix hydrolase family. CPSF5 subfamily.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=CAA18171.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=CAB81365.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AL022197; CAA18171.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL161563; CAB81365.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002687; AEE85076.1; -; Genomic_DNA.
DR EMBL; AK118070; BAC42701.1; -; mRNA.
DR EMBL; BT005519; AAO63939.1; -; mRNA.
DR EMBL; AK220576; BAD94845.1; -; mRNA.
DR EMBL; AK228476; BAF00402.1; -; mRNA.
DR PIR; C85295; C85295.
DR PIR; T05792; T05792.
DR RefSeq; NP_194285.2; NM_118687.3. [Q8GXS3-1]
DR AlphaFoldDB; Q8GXS3; -.
DR SMR; Q8GXS3; -.
DR BioGRID; 13947; 11.
DR IntAct; Q8GXS3; 11.
DR STRING; 3702.AT4G25550.1; -.
DR PaxDb; Q8GXS3; -.
DR PRIDE; Q8GXS3; -.
DR ProteomicsDB; 220611; -. [Q8GXS3-1]
DR EnsemblPlants; AT4G25550.1; AT4G25550.1; AT4G25550. [Q8GXS3-1]
DR GeneID; 828660; -.
DR Gramene; AT4G25550.1; AT4G25550.1; AT4G25550. [Q8GXS3-1]
DR KEGG; ath:AT4G25550; -.
DR Araport; AT4G25550; -.
DR TAIR; locus:2131839; AT4G25550.
DR eggNOG; KOG1689; Eukaryota.
DR HOGENOM; CLU_068704_1_1_1; -.
DR InParanoid; Q8GXS3; -.
DR OMA; EHYEQYG; -.
DR PhylomeDB; Q8GXS3; -.
DR PRO; PR:Q8GXS3; -.
DR Proteomes; UP000006548; Chromosome 4.
DR ExpressionAtlas; Q8GXS3; baseline and differential.
DR Genevisible; Q8GXS3; AT.
DR GO; GO:0005829; C:cytosol; IDA:TAIR.
DR GO; GO:0005849; C:mRNA cleavage factor complex; IBA:GO_Central.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0003729; F:mRNA binding; IBA:GO_Central.
DR GO; GO:0006378; P:mRNA polyadenylation; IEA:InterPro.
DR GO; GO:0006397; P:mRNA processing; IBA:GO_Central.
DR GO; GO:0006364; P:rRNA processing; IMP:TAIR.
DR InterPro; IPR016706; Cleav_polyA_spec_factor_su5.
DR InterPro; IPR015797; NUDIX_hydrolase-like_dom_sf.
DR PANTHER; PTHR13047; PTHR13047; 1.
DR Pfam; PF13869; NUDIX_2; 1.
DR PIRSF; PIRSF017888; CPSF-25; 1.
DR SUPFAM; SSF55811; SSF55811; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Metal-binding; mRNA processing; Nucleus;
KW Reference proteome; RNA-binding.
FT CHAIN 1..200
FT /note="Pre-mRNA cleavage factor Im 25 kDa subunit 2"
FT /id="PRO_0000431332"
FT DOMAIN 45..172
FT /note="Nudix hydrolase"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00794"
FT REGION 72..74
FT /note="Interaction with RNA"
FT /evidence="ECO:0000250|UniProtKB:O43809"
FT MOTIF 79..100
FT /note="Nudix box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00794"
FT SITE 33
FT /note="Interaction with RNA"
FT /evidence="ECO:0000250|UniProtKB:O43809"
FT SITE 179
FT /note="Interaction with RNA"
FT /evidence="ECO:0000250|UniProtKB:O43809"
FT VAR_SEQ 57..200
FT /note="Missing (in isoform 2)"
FT /id="VSP_057237"
SQ SEQUENCE 200 AA; 22830 MW; 557862865ACB39C8 CRC64;
MAMSQVVNTY PLSNYSFGTK EPKLEKDTSV ADRLARMKIN YMKEGMRTSV EGILLVQEHN
HPHILLLQIG NTFCKLPGGR LKPGENEADG LKRKLTSKLG GNSAALVPDW TVGECVATWW
RPNFETMMYP YCPPHITKPK ECKRLYIVHL SEKEYFAVPK NLKLLAVPLF ELYDNVQRYG
PVISTIPQQL SRFHFNMISS
