PR40C_ARATH
ID PR40C_ARATH Reviewed; 835 AA.
AC Q9LT25; Q8GZ66;
DT 11-JUL-2012, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 25-MAY-2022, entry version 115.
DE RecName: Full=Pre-mRNA-processing protein 40C {ECO:0000303|PubMed:19467629};
DE Short=AtPRP40c {ECO:0000303|PubMed:19467629};
DE AltName: Full=Transcription elongation regulator 1;
GN Name=PRP40C {ECO:0000303|PubMed:19467629};
GN Synonyms=MED35_3 {ECO:0000303|PubMed:22021418}, MED35C;
GN OrderedLocusNames=At3g19840 {ECO:0000312|Araport:AT3G19840};
GN ORFNames=MPN9.8 {ECO:0000312|EMBL:BAB01298.1};
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;
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=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 FUNCTION, INTERACTION WITH NRPB1, AND TISSUE SPECIFICITY.
RX PubMed=19467629; DOI=10.1016/j.abb.2009.01.004;
RA Kang C.H., Feng Y., Vikram M., Jeong I.S., Lee J.R., Bahk J.D., Yun D.J.,
RA Lee S.Y., Koiwa H.;
RT "Arabidopsis thaliana PRP40s are RNA polymerase II C-terminal domain-
RT associating proteins.";
RL Arch. Biochem. Biophys. 484:30-38(2009).
RN [5]
RP NOMENCLATURE.
RX PubMed=22021418; DOI=10.1104/pp.111.188300;
RA Mathur S., Vyas S., Kapoor S., Tyagi A.K.;
RT "The Mediator complex in plants: structure, phylogeny, and expression
RT profiling of representative genes in a dicot (Arabidopsis) and a monocot
RT (rice) during reproduction and abiotic stress.";
RL Plant Physiol. 157:1609-1627(2011).
CC -!- FUNCTION: Binds the phosphorylated C-terminal domain (CTD) of the
CC largest subunit of RNA polymerase II and functions as a scaffold for
CC RNA processing machineries (Probable). May be involved in pre-mRNA
CC splicing (Probable). {ECO:0000305|PubMed:19467629}.
CC -!- SUBUNIT: Interacts (via the WW domains) with the phosphorylated C-
CC terminal domain of NRPB1 (via CTD domain).
CC {ECO:0000269|PubMed:19467629}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC -!- TISSUE SPECIFICITY: Expressed in roots, shoots, rosette leaves, cauline
CC leaves, stems and flowers. {ECO:0000269|PubMed:19467629}.
CC -!- SIMILARITY: Belongs to the PRPF40 family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAC41860.1; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305};
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DR EMBL; AB025631; BAB01298.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE76298.1; -; Genomic_DNA.
DR EMBL; AK117183; BAC41860.1; ALT_SEQ; mRNA.
DR RefSeq; NP_188618.3; NM_112874.4.
DR AlphaFoldDB; Q9LT25; -.
DR SMR; Q9LT25; -.
DR BioGRID; 6853; 1.
DR STRING; 3702.AT3G19840.1; -.
DR iPTMnet; Q9LT25; -.
DR PaxDb; Q9LT25; -.
DR PRIDE; Q9LT25; -.
DR ProteomicsDB; 234797; -.
DR EnsemblPlants; AT3G19840.1; AT3G19840.1; AT3G19840.
DR GeneID; 821521; -.
DR Gramene; AT3G19840.1; AT3G19840.1; AT3G19840.
DR KEGG; ath:AT3G19840; -.
DR Araport; AT3G19840; -.
DR TAIR; locus:2092296; AT3G19840.
DR eggNOG; KOG0155; Eukaryota.
DR HOGENOM; CLU_004993_1_0_1; -.
DR InParanoid; Q9LT25; -.
DR OMA; ENHASER; -.
DR OrthoDB; 1388955at2759; -.
DR PhylomeDB; Q9LT25; -.
DR PRO; PR:Q9LT25; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q9LT25; baseline and differential.
DR Genevisible; Q9LT25; AT.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0070063; F:RNA polymerase binding; IDA:TAIR.
DR GO; GO:0003712; F:transcription coregulator activity; IBA:GO_Central.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR GO; GO:0008380; P:RNA splicing; IDA:TAIR.
DR CDD; cd00201; WW; 2.
DR Gene3D; 1.10.10.440; -; 5.
DR InterPro; IPR002713; FF_domain.
DR InterPro; IPR036517; FF_domain_sf.
DR InterPro; IPR045148; TCRG1-like.
DR InterPro; IPR001202; WW_dom.
DR InterPro; IPR036020; WW_dom_sf.
DR PANTHER; PTHR15377; PTHR15377; 1.
DR Pfam; PF01846; FF; 3.
DR Pfam; PF00397; WW; 1.
DR SMART; SM00441; FF; 4.
DR SMART; SM00456; WW; 2.
DR SUPFAM; SSF51045; SSF51045; 2.
DR SUPFAM; SSF81698; SSF81698; 5.
DR PROSITE; PS51676; FF; 5.
DR PROSITE; PS01159; WW_DOMAIN_1; 2.
DR PROSITE; PS50020; WW_DOMAIN_2; 2.
PE 1: Evidence at protein level;
KW mRNA processing; mRNA splicing; Nucleus; Reference proteome; Repeat.
FT CHAIN 1..835
FT /note="Pre-mRNA-processing protein 40C"
FT /id="PRO_0000418359"
FT DOMAIN 243..276
FT /note="WW 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00224"
FT DOMAIN 295..328
FT /note="WW 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00224"
FT DOMAIN 455..509
FT /note="FF 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01013"
FT DOMAIN 519..577
FT /note="FF 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01013"
FT DOMAIN 590..643
FT /note="FF 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01013"
FT DOMAIN 691..748
FT /note="FF 4"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01013"
FT DOMAIN 750..815
FT /note="FF 5"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01013"
FT REGION 1..22
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 397..459
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 649..677
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 714..738
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1..20
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 399..427
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 835 AA; 92807 MW; D5997636273C9477 CRC64;
MEGENTTDPP YTTAASSGQS IFVRPPPIAP VLATTSNFSQ SELKELHSMS IASTGFVSQS
VPYSVTAQWG TNAAASSNVN PIPQASPMLA NAPFGRPGTL APPGLMTSPP AFPGSNPFST
TPRPGMSAGP AQMNPGIHPH MYPPYHSLPG TPQGMWLQPP SMGGIPRAPF LSHPTTFPGS
YPFPVRGISP NLPYSGSHPL GASPMGSVGN VHALPGRQPD ISPGRKTEEL SGIDDRAGSQ
LVGNRLDAWT AHKSEAGVLY YYNSVTGQST YEKPPGFGGE PDKVPVQPIP VSMESLPGTD
WALVSTNDGK KYYYNNKTKV SSWQIPAEVK DFGKKLEERA MESVASVPSA DLTEKGSDLT
SLSAPAISNG GRDAASLKTT NFGSSALDLV KKKLHDSGMP VSSTITSEAN SGKTTEVTPS
GESGNSTGKV KDAPGAGALS DSSSDSEDED SGPSKEECSK QFKEMLKERG IAPFSKWEKE
LPKIIFDPRF KAIPSHSVRR SLFEQYVKTR AEEERREKRA AHKAAIEGFR QLLDDASTDI
DQHTDYRAFK KKWGNDLRFE AIERKEREGL LNERVLSLKR SAEQKAQEIR AAAASDFKTM
LREREISINS HWSKVKDSLR NEPRYRSVAH EDREVFYYEY IAELKAAQRG DDHEMKARDE
EDKLRERERE LRKRKEREVQ EVERVRQKIR RKEASSSYQA LLVEKIRDPE ASWTESKPIL
ERDPQKRASN PDLEPADKEK LFRDHVKSLY ERCVHDFKAL LAEALSSEAA TLQTEDGKTA
LNSWSTAKQV LKPDIRYSKM PRQDREVVWR RYVEDISRKQ RHENYQEEKQ RDYKT
