ID   SEN21_ARATH             Reviewed;         237 AA.
AC   Q9M1E8; Q9S7L3;
DT   06-DEC-2005, integrated into UniProtKB/Swiss-Prot.
DT   01-OCT-2000, sequence version 1.
DT   27-MAR-2024, entry version 137.
DE   RecName: Full=tRNA-splicing endonuclease subunit Sen2-1;
DE            EC=4.6.1.16;
DE   AltName: Full=tRNA-intron endonuclease Sen2-1;
DE            Short=AtSen1;
GN   Name=SEN1; OrderedLocusNames=At3g45590; ORFNames=F9K21.170;
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 [GENOMIC DNA / MRNA], AND VARIANTS LEU-24; GLN-27;
RP   GLN-52; SER-67; SER-167; THR-191; 199-ARG--LYS-205 DELINS
RP   GLY-GLN-VAL-LYS-THR-GLU-ASN AND 213-GLU-ASP-214 DELINS ASP-GLU.
RC   STRAIN=cv. Columbia, and cv. Landsberg erecta;
RX   PubMed=11080584; DOI=10.1016/s0378-1119(00)00408-x;
RA   Akama K., Junker V., Beier H.;
RT   "Identification of two catalytic subunits of tRNA splicing endonuclease
RT   from Arabidopsis thaliana.";
RL   Gene 257:177-185(2000).
RN   [2]
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   [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).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
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.
CC   -!- FUNCTION: Constitutes one of the two catalytic subunit of the tRNA-
CC       splicing endonuclease complex, a complex responsible for identification
CC       and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at
CC       the 5'- and 3'-splice sites to release the intron. The products are an
CC       intron and two tRNA half-molecules bearing 2',3'-cyclic phosphate and
CC       5'-OH termini. There are no conserved sequences at the splice sites,
CC       but the intron is invariably located at the same site in the gene,
CC       placing the splice sites an invariant distance from the constant
CC       structural features of the tRNA body. Probably carries the active site
CC       for 5'-splice site cleavage (By similarity). {ECO:0000250}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=pretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-
CC         half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with
CC         a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus.; EC=4.6.1.16;
CC   -!- SUBUNIT: tRNA splicing endonuclease is a heterotetramer composed of
CC       SEN2, SEN15, SEN34/LENG5 and SEN54. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC   -!- SIMILARITY: Belongs to the tRNA-intron endonuclease family.
CC       {ECO:0000305}.
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DR   EMBL; AB036339; BAA88627.1; -; mRNA.
DR   EMBL; AB036340; BAA88628.1; -; Genomic_DNA.
DR   EMBL; AL138657; CAB75488.1; -; Genomic_DNA.
DR   EMBL; CP002686; AEE78047.1; -; Genomic_DNA.
DR   EMBL; CP002686; AEE78048.1; -; Genomic_DNA.
DR   EMBL; AK221492; BAD94688.1; -; mRNA.
DR   PIR; T47499; T47499.
DR   RefSeq; NP_001078245.1; NM_001084776.2.
DR   RefSeq; NP_190145.1; NM_114428.4.
DR   AlphaFoldDB; Q9M1E8; -.
DR   SMR; Q9M1E8; -.
DR   STRING; 3702.Q9M1E8; -.
DR   PaxDb; 3702-AT3G45590-1; -.
DR   ProteomicsDB; 234507; -.
DR   EnsemblPlants; AT3G45590.1; AT3G45590.1; AT3G45590.
DR   EnsemblPlants; AT3G45590.2; AT3G45590.2; AT3G45590.
DR   GeneID; 823701; -.
DR   Gramene; AT3G45590.1; AT3G45590.1; AT3G45590.
DR   Gramene; AT3G45590.2; AT3G45590.2; AT3G45590.
DR   KEGG; ath:AT3G45590; -.
DR   Araport; AT3G45590; -.
DR   TAIR; AT3G45590; SEN1.
DR   eggNOG; KOG4685; Eukaryota.
DR   HOGENOM; CLU_053228_0_0_1; -.
DR   InParanoid; Q9M1E8; -.
DR   OMA; ENNEQWF; -.
DR   OrthoDB; 35871at2759; -.
DR   PhylomeDB; Q9M1E8; -.
DR   BRENDA; 4.6.1.16; 399.
DR   PRO; PR:Q9M1E8; -.
DR   Proteomes; UP000006548; Chromosome 3.
DR   ExpressionAtlas; Q9M1E8; baseline and differential.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0016829; F:lyase activity; IEA:UniProtKB-KW.
DR   GO; GO:0003676; F:nucleic acid binding; IEA:InterPro.
DR   GO; GO:0000213; F:tRNA-intron endonuclease activity; IEA:UniProtKB-EC.
DR   GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR   GO; GO:0006388; P:tRNA splicing, via endonucleolytic cleavage and ligation; IEA:InterPro.
DR   CDD; cd22363; tRNA-intron_lyase_C; 1.
DR   Gene3D; 3.40.1350.10; -; 1.
DR   InterPro; IPR011856; tRNA_endonuc-like_dom_sf.
DR   InterPro; IPR036167; tRNA_intron_Endo_cat-like_sf.
DR   InterPro; IPR006677; tRNA_intron_Endonuc_cat-like.
DR   InterPro; IPR006678; tRNA_intron_Endonuc_N.
DR   InterPro; IPR006676; tRNA_splic.
DR   PANTHER; PTHR21227; TRNA-SPLICING ENDONUCLEASE SUBUNIT SEN2; 1.
DR   PANTHER; PTHR21227:SF0; TRNA-SPLICING ENDONUCLEASE SUBUNIT SEN2; 1.
DR   Pfam; PF01974; tRNA_int_endo; 1.
DR   Pfam; PF02778; tRNA_int_endo_N; 1.
DR   SUPFAM; SSF53032; tRNA-intron endonuclease catalytic domain-like; 1.
DR   Genevisible; Q9M1E8; AT.
PE   2: Evidence at transcript level;
KW   Lyase; mRNA processing; Nucleus; Reference proteome; tRNA processing.
FT   CHAIN           1..237
FT                   /note="tRNA-splicing endonuclease subunit Sen2-1"
FT                   /id="PRO_0000109456"
FT   ACT_SITE        148
FT                   /evidence="ECO:0000250"
FT   ACT_SITE        156
FT                   /evidence="ECO:0000250"
FT   ACT_SITE        190
FT                   /evidence="ECO:0000250"
FT   VARIANT         24
FT                   /note="S -> L (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         27
FT                   /note="R -> Q (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         52
FT                   /note="E -> Q (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         67
FT                   /note="G -> S (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         167
FT                   /note="G -> S (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         191
FT                   /note="S -> T (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         199..205
FT                   /note="RKVNTEK -> GQVKTEN (in strain: cv. Landsberg
FT                   erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
FT   VARIANT         213..214
FT                   /note="ED -> DE (in strain: cv. Landsberg erecta)"
FT                   /evidence="ECO:0000269|PubMed:11080584"
SQ   SEQUENCE   237 AA;  27359 MW;  2844856CB58CD0B2 CRC64;
     MAPRWKWKGA EAKALAEPVS KTVSELRSSL TQTEALGFLS SCNVLLSVES EEAELLDRCC
     FGRLVVGAEK DKRWIQLSFE EAFFLFYKLK CIKICLHGRS LENEVDLWRS MSSFKQDFAI
     LYKAYSHLRS KNWIVRSGLQ YGVDFVVYRH HPSLVHSEYA VLVQSIGGND RLKVWSDIHC
     SVRLTGSVAK SLLVLYVNRK VNTEKMNLPL CLEDYTVEEQ TIRRWSPELS REDETRT
//