PUS2_ARATH
ID PUS2_ARATH Reviewed; 430 AA.
AC Q3ECD0; Q8GY94; Q9LQR4;
DT 10-FEB-2009, integrated into UniProtKB/Swiss-Prot.
DT 08-NOV-2005, sequence version 1.
DT 03-AUG-2022, entry version 112.
DE RecName: Full=RNA pseudouridine synthase 2, chloroplastic;
DE EC=5.4.99.-;
DE AltName: Full=RNA pseudouridylate synthase 2;
DE AltName: Full=RNA-uridine isomerase 2;
DE Flags: Precursor;
GN OrderedLocusNames=At1g76050; ORFNames=T4O12.210;
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=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(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] (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=14993207; DOI=10.1101/gr.1515604;
RA Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M.,
RA Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M.,
RA Weissenbach J., Salanoubat M.;
RT "Whole genome sequence comparisons and 'full-length' cDNA sequences: a
RT combined approach to evaluate and improve Arabidopsis genome annotation.";
RL Genome Res. 14:406-413(2004).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 4-313 (ISOFORM 2).
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).
CC -!- CATALYTIC ACTIVITY:
CC Reaction=a uridine in RNA = a pseudouridine in RNA;
CC Xref=Rhea:RHEA:48348, Rhea:RHEA-COMP:12068, Rhea:RHEA-COMP:12069,
CC ChEBI:CHEBI:65314, ChEBI:CHEBI:65315;
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000305}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q3ECD0-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q3ECD0-2; Sequence=VSP_036289;
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to a competing donor splice
CC site. {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the pseudouridine synthase RluA family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAF26765.1; Type=Erroneous gene model prediction; Note=The predicted gene has been split into 2 genes: At1g76040 and At1g76050.; Evidence={ECO:0000305};
CC Sequence=BAC42428.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=BX816325; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence={ECO:0000305};
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DR EMBL; AC007396; AAF26765.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE35789.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE35790.1; -; Genomic_DNA.
DR EMBL; BX816325; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK117781; BAC42428.1; ALT_INIT; mRNA.
DR RefSeq; NP_177732.2; NM_106254.3. [Q3ECD0-2]
DR RefSeq; NP_974151.1; NM_202422.3. [Q3ECD0-1]
DR AlphaFoldDB; Q3ECD0; -.
DR SMR; Q3ECD0; -.
DR STRING; 3702.AT1G76050.2; -.
DR PaxDb; Q3ECD0; -.
DR PRIDE; Q3ECD0; -.
DR ProteomicsDB; 225915; -. [Q3ECD0-1]
DR EnsemblPlants; AT1G76050.1; AT1G76050.1; AT1G76050. [Q3ECD0-2]
DR EnsemblPlants; AT1G76050.2; AT1G76050.2; AT1G76050. [Q3ECD0-1]
DR GeneID; 843937; -.
DR Gramene; AT1G76050.1; AT1G76050.1; AT1G76050. [Q3ECD0-2]
DR Gramene; AT1G76050.2; AT1G76050.2; AT1G76050. [Q3ECD0-1]
DR KEGG; ath:AT1G76050; -.
DR Araport; AT1G76050; -.
DR TAIR; locus:2204355; AT1G76050.
DR eggNOG; KOG1919; Eukaryota.
DR HOGENOM; CLU_016902_4_3_1; -.
DR InParanoid; Q3ECD0; -.
DR OMA; AHPSPGW; -.
DR OrthoDB; 1378690at2759; -.
DR PhylomeDB; Q3ECD0; -.
DR BioCyc; ARA:AT1G76050-MON; -.
DR PRO; PR:Q3ECD0; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q3ECD0; baseline and differential.
DR Genevisible; Q3ECD0; AT.
DR GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR GO; GO:0009982; F:pseudouridine synthase activity; IBA:GO_Central.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR GO; GO:0000455; P:enzyme-directed rRNA pseudouridine synthesis; IBA:GO_Central.
DR CDD; cd02869; PseudoU_synth_RluA_like; 1.
DR CDD; cd00165; S4; 1.
DR Gene3D; 3.10.290.10; -; 1.
DR InterPro; IPR020103; PsdUridine_synth_cat_dom_sf.
DR InterPro; IPR006225; PsdUridine_synth_RluC/D.
DR InterPro; IPR006224; PsdUridine_synth_RluC/D_CS.
DR InterPro; IPR006145; PsdUridine_synth_RsuA/RluA.
DR InterPro; IPR002942; S4_RNA-bd.
DR InterPro; IPR036986; S4_RNA-bd_sf.
DR Pfam; PF00849; PseudoU_synth_2; 1.
DR Pfam; PF01479; S4; 1.
DR SMART; SM00363; S4; 1.
DR SUPFAM; SSF55120; SSF55120; 1.
DR TIGRFAMs; TIGR00005; rluA_subfam; 1.
DR PROSITE; PS01129; PSI_RLU; 1.
DR PROSITE; PS50889; S4; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Chloroplast; Isomerase; Plastid; Reference proteome;
KW RNA-binding; Transit peptide.
FT TRANSIT 1..43
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 44..430
FT /note="RNA pseudouridine synthase 2, chloroplastic"
FT /id="PRO_0000363328"
FT DOMAIN 82..155
FT /note="S4 RNA-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00182"
FT REGION 195..222
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 195..212
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT ACT_SITE 234
FT /evidence="ECO:0000250"
FT VAR_SEQ 314..430
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:11910074"
FT /id="VSP_036289"
SQ SEQUENCE 430 AA; 46715 MW; 9EF980B7710967E3 CRC64;
MLSISQLPSF SLTTAKSLRY PSSPSSSLSI FFSFFPKVSN FVRASSGIPN LVACSPTEII
IPRVNNAGLR IEEIVDAAKG KIRLDSWISS RINGVSRARV QSSIRLGLVT VNGRVVDKVS
HNVKSGDEVN CTISELQPLK AEAEDIPLDI VYEDKHVLVV NKPAHMVVHP APGNPTGTLV
NGILHHCSLP CVDYSNSEED DDSDEETFSD DEEMTTSPSS YAASVRPGIV HRLDKGTTGL
LVVAKDEHSH AHLAEQFKLH TIERVYVSLT TGVPSPPQGR IEIPIGRDSS NRIRMAAIPG
GVRGGRARHA ASRYKVIETF AGGGSALVEW RLETGRTHQI RAHAKYMGVP LLGDEVYGGT
KSMALSLLQK RVSRSDQEEI IELISRMDRP CLHAIVLGFT HPCTGEIVKF SCPPPSDLAE
IVGLLRRSGL
