U2A2B_ARATH
ID U2A2B_ARATH Reviewed; 589 AA.
AC Q8L716; Q9C961;
DT 14-OCT-2008, integrated into UniProtKB/Swiss-Prot.
DT 14-OCT-2008, sequence version 2.
DT 25-MAY-2022, entry version 119.
DE RecName: Full=Splicing factor U2af large subunit B {ECO:0000303|PubMed:24580679};
DE AltName: Full=U2 auxiliary factor 65 kDa subunit B {ECO:0000303|PubMed:24580679};
DE AltName: Full=U2 small nuclear ribonucleoprotein auxiliary factor large subunit B {ECO:0000303|PubMed:24580679};
DE Short=U2 snRNP auxiliary factor large subunit B {ECO:0000303|PubMed:24580679};
GN Name=U2AF65B {ECO:0000303|PubMed:24580679};
GN OrderedLocusNames=At1g60900 {ECO:0000312|Araport:AT1G60900};
GN ORFNames=T7P1.5 {ECO:0000312|EMBL:AAG51641.1};
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=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].
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 [4]
RP INTERACTION WITH SF1, AND SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia;
RX PubMed=24580679; DOI=10.1111/tpj.12491;
RA Jang Y.H., Park H.-Y., Lee K.C., Thu M.P., Kim S.-K., Suh M.C., Kang H.,
RA Kim J.-K.;
RT "A homolog of splicing factor SF1 is essential for development and is
RT involved in the alternative splicing of pre-mRNA in Arabidopsis thaliana.";
RL Plant J. 78:591-603(2014).
CC -!- FUNCTION: Necessary for the splicing of pre-mRNA. {ECO:0000250}.
CC -!- SUBUNIT: Component of the spliceosome (Probable). Interacts with SF1 in
CC the nucleus (PubMed:24580679). {ECO:0000269|PubMed:24580679,
CC ECO:0000305}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:24580679}.
CC -!- DOMAIN: N-terminal RS domain has a very strong bias in favor of D over
CC S.
CC -!- SIMILARITY: Belongs to the splicing factor SR family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAG51641.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AC018908; AAG51641.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE33746.1; -; Genomic_DNA.
DR EMBL; AY140014; AAM98156.1; -; mRNA.
DR PIR; E96634; E96634.
DR RefSeq; NP_176287.3; NM_104771.4.
DR AlphaFoldDB; Q8L716; -.
DR SMR; Q8L716; -.
DR STRING; 3702.AT1G60900.1; -.
DR PaxDb; Q8L716; -.
DR PRIDE; Q8L716; -.
DR ProteomicsDB; 243200; -.
DR EnsemblPlants; AT1G60900.1; AT1G60900.1; AT1G60900.
DR GeneID; 842382; -.
DR Gramene; AT1G60900.1; AT1G60900.1; AT1G60900.
DR KEGG; ath:AT1G60900; -.
DR Araport; AT1G60900; -.
DR TAIR; locus:2206001; AT1G60900.
DR eggNOG; KOG0120; Eukaryota.
DR HOGENOM; CLU_021795_4_1_1; -.
DR InParanoid; Q8L716; -.
DR OMA; CAAFFPE; -.
DR OrthoDB; 896650at2759; -.
DR PhylomeDB; Q8L716; -.
DR PRO; PR:Q8L716; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q8L716; baseline and differential.
DR Genevisible; Q8L716; AT.
DR GO; GO:0000243; C:commitment complex; IBA:GO_Central.
DR GO; GO:0016607; C:nuclear speck; IDA:TAIR.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0071004; C:U2-type prespliceosome; IBA:GO_Central.
DR GO; GO:0089701; C:U2AF complex; IBA:GO_Central.
DR GO; GO:0008187; F:poly-pyrimidine tract binding; IBA:GO_Central.
DR GO; GO:0030628; F:pre-mRNA 3'-splice site binding; IBA:GO_Central.
DR GO; GO:0000398; P:mRNA splicing, via spliceosome; IMP:TAIR.
DR GO; GO:0009737; P:response to abscisic acid; IDA:TAIR.
DR Gene3D; 3.30.70.330; -; 3.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR035979; RBD_domain_sf.
DR InterPro; IPR000504; RRM_dom.
DR InterPro; IPR006529; U2AF_lg.
DR Pfam; PF00076; RRM_1; 1.
DR SMART; SM00360; RRM; 3.
DR SUPFAM; SSF54928; SSF54928; 2.
DR TIGRFAMs; TIGR01642; U2AF_lg; 1.
DR PROSITE; PS50102; RRM; 2.
PE 1: Evidence at protein level;
KW mRNA processing; mRNA splicing; Nucleus; Reference proteome; Repeat;
KW RNA-binding; Spliceosome.
FT CHAIN 1..589
FT /note="Splicing factor U2af large subunit B"
FT /id="PRO_0000352268"
FT DOMAIN 255..338
FT /note="RRM 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT DOMAIN 375..453
FT /note="RRM 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT DOMAIN 494..580
FT /note="RRM 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT REGION 1..195
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 10..29
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 30..100
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 110..141
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 142..185
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 255
FT /note="R -> P (in Ref. 3; AAM98156)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 589 AA; 66316 MW; C94E70DBA2621601 CRC64;
MMSYEGNGDG VAISTENHNE NYISLESSPF HEDSKSRESH DLKKDSSKIS EKDNENGRDK
DGNKDRDREK DRDREKSRDR DREKSRDRDR DRERSKDRQR DRHHRDRHRD RSRERSEKRD
DLDDDHHRRS RDRDRRRSRD RDREVRHRRR SRSRSRSRSE RRSRSEHRHK SEHRSRSRSR
SRSKSKRRSG FDMAPPDMLA ATAVAAAGQV PSVPTTATIP GMFSNMFPMV PGQQLGALPV
LPVQAMTQQA TRHARRVYVG GLPPTANEQS VSTFFSQVMS AIGGNTAGPG DAVVNVYINH
EKKFAFVEMR SVEEASNAMA LDGIILEGVP VKVRRPTDYN PSLAATLGPS QPNPNLNLGA
VGLSSGSTGG LEGPDRIFVG GLPYYFTEVQ IRELLESFGP LRGFNLVKDR ETGNSKGYAF
CVYQDPSVTD IACAALNGIK MGDKTLTVRR AIQGAIQPKP EQEEVLLYAQ QQIALQRLMF
QPGGTPTKIV CLTQVVTADD LRDDEEYAEI MEDMRQEGGK FGNLVNVVIP RPNPDHDPTP
GVGKVFLEYA DVDGSSKARS GMNGRKFGGN QVVAVYYPED KYAQGDYED
