IRX9L_ORYSJ
ID IRX9L_ORYSJ Reviewed; 446 AA.
AC Q5QM25; A0A023ND33; Q5QM24;
DT 03-MAY-2011, integrated into UniProtKB/Swiss-Prot.
DT 04-JAN-2005, sequence version 1.
DT 03-AUG-2022, entry version 94.
DE RecName: Full=Probable beta-1,4-xylosyltransferase IRX9L {ECO:0000305};
DE EC=2.4.2.- {ECO:0000305};
DE AltName: Full=OsGT43F {ECO:0000303|PubMed:24525904};
DE AltName: Full=Probable glucuronosyltransferase Os01g0675500 {ECO:0000305};
DE AltName: Full=Protein IRREGULAR XYLEM 9 homolog L {ECO:0000305};
DE Short=OsIRX9L {ECO:0000303|PubMed:23596448};
GN Name=IRX9L {ECO:0000303|PubMed:23596448};
GN Synonyms=GT43F {ECO:0000303|PubMed:24525904};
GN OrderedLocusNames=Os01g0675500 {ECO:0000312|EMBL:BAS73653.1},
GN LOC_Os01g48440 {ECO:0000305};
GN ORFNames=OJ1117_G01.11 {ECO:0000312|EMBL:BAD73527.1},
GN OsJ_02989 {ECO:0000312|EMBL:EAZ13068.1},
GN P0485G01.45 {ECO:0000312|EMBL:BAD73380.1};
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA].
RX PubMed=24525904; DOI=10.4161/psb.27809;
RA Lee C., Teng Q., Zhong R., Yuan Y., Ye Z.H.;
RT "Functional roles of rice glycosyltransferase family GT43 in xylan
RT biosynthesis.";
RL Plant Signal. Behav. 9:E27809-E27809(2014).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12447438; DOI=10.1038/nature01184;
RA Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.,
RA Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M.,
RA Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T.,
RA Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S.,
RA Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H.,
RA Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y.,
RA Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S.,
RA Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y.,
RA Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S.,
RA Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H.,
RA Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.;
RT "The genome sequence and structure of rice chromosome 1.";
RL Nature 420:312-316(2002).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [5]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT "The genomes of Oryza sativa: a history of duplications.";
RL PLoS Biol. 3:266-281(2005).
RN [7]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
RN [8]
RP FUNCTION.
RX PubMed=23596448; DOI=10.3389/fpls.2013.00083;
RA Chiniquy D., Varanasi P., Oh T., Harholt J., Katnelson J., Singh S.,
RA Auer M., Simmons B., Adams P.D., Scheller H.V., Ronald P.C.;
RT "Three novel rice genes closely related to the Arabidopsis IRX9, IRX9L, and
RT IRX14 genes and their roles in xylan biosynthesis.";
RL Front. Plant Sci. 4:83-83(2013).
CC -!- FUNCTION: Probable beta-1,4-xylosyltransferase involved in xylan
CC biosynthesis in cell walls. {ECO:0000269|PubMed:23596448}.
CC -!- SUBCELLULAR LOCATION: Golgi apparatus membrane {ECO:0000305}; Single-
CC pass type II membrane protein {ECO:0000255}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q5QM25-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q5QM25-2; Sequence=VSP_040955, VSP_040956;
CC -!- SIMILARITY: Belongs to the glycosyltransferase 43 family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAD73381.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
CC Sequence=BAD73528.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
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DR EMBL; KJ206903; AHW98786.1; -; mRNA.
DR EMBL; AP003264; BAD73380.1; -; Genomic_DNA.
DR EMBL; AP003264; BAD73381.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP003374; BAD73527.1; -; Genomic_DNA.
DR EMBL; AP003374; BAD73528.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP008207; BAF05760.1; -; Genomic_DNA.
DR EMBL; AP014957; BAS73653.1; -; Genomic_DNA.
DR EMBL; CM000138; EAZ13068.1; -; Genomic_DNA.
DR EMBL; AK062112; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK069674; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015621593.1; XM_015766107.1. [Q5QM25-1]
DR AlphaFoldDB; Q5QM25; -.
DR SMR; Q5QM25; -.
DR STRING; 4530.OS01T0675500-01; -.
DR PaxDb; Q5QM25; -.
DR PRIDE; Q5QM25; -.
DR EnsemblPlants; Os01t0675500-01; Os01t0675500-01; Os01g0675500. [Q5QM25-1]
DR GeneID; 4325514; -.
DR Gramene; Os01t0675500-01; Os01t0675500-01; Os01g0675500. [Q5QM25-1]
DR KEGG; osa:4325514; -.
DR eggNOG; KOG1476; Eukaryota.
DR HOGENOM; CLU_044006_0_0_1; -.
DR InParanoid; Q5QM25; -.
DR OMA; WHTNQRR; -.
DR OrthoDB; 901158at2759; -.
DR Proteomes; UP000000763; Chromosome 1.
DR Proteomes; UP000007752; Chromosome 1.
DR Proteomes; UP000059680; Chromosome 1.
DR ExpressionAtlas; Q5QM25; baseline and differential.
DR Genevisible; Q5QM25; OS.
DR GO; GO:0000139; C:Golgi membrane; IBA:GO_Central.
DR GO; GO:0016021; C:integral component of membrane; IEA:UniProtKB-KW.
DR GO; GO:0015018; F:galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity; IEA:InterPro.
DR GO; GO:0042285; F:xylosyltransferase activity; IBA:GO_Central.
DR GO; GO:0005975; P:carbohydrate metabolic process; IBA:GO_Central.
DR GO; GO:0071555; P:cell wall organization; IEA:UniProtKB-KW.
DR GO; GO:0010417; P:glucuronoxylan biosynthetic process; IBA:GO_Central.
DR GO; GO:0009834; P:plant-type secondary cell wall biogenesis; IBA:GO_Central.
DR GO; GO:0045492; P:xylan biosynthetic process; IDA:UniProtKB.
DR CDD; cd00218; GlcAT-I; 1.
DR Gene3D; 3.90.550.10; -; 1.
DR InterPro; IPR005027; Glyco_trans_43.
DR InterPro; IPR029044; Nucleotide-diphossugar_trans.
DR PANTHER; PTHR10896; PTHR10896; 1.
DR Pfam; PF03360; Glyco_transf_43; 1.
DR SUPFAM; SSF53448; SSF53448; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Cell wall biogenesis/degradation; Glycoprotein;
KW Glycosyltransferase; Golgi apparatus; Membrane; Reference proteome;
KW Signal-anchor; Transferase; Transmembrane; Transmembrane helix.
FT CHAIN 1..446
FT /note="Probable beta-1,4-xylosyltransferase IRX9L"
FT /id="PRO_0000407554"
FT TOPO_DOM 1..85
FT /note="Cytoplasmic"
FT /evidence="ECO:0000305"
FT TRANSMEM 86..106
FT /note="Helical; Signal-anchor for type II membrane protein"
FT /evidence="ECO:0000255"
FT TOPO_DOM 107..446
FT /note="Lumenal"
FT /evidence="ECO:0000305"
FT REGION 1..26
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CARBOHYD 185
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 258
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 361
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 411
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT VAR_SEQ 391..408
FT /note="ESRFIEKLVEDESQMEGL -> LNTPFQDLVSSVNLLHNY (in isoform
FT 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_040955"
FT VAR_SEQ 409..446
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_040956"
FT CONFLICT 311
FT /note="T -> K (in Ref. 7; AK069674)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 446 AA; 50318 MW; 4D10B0198285AD1E CRC64;
MSRRNAGAMQ REGSVKDWEE FDPSPSPKLA YSQSYVAMRG LLTSVASLDL VLMSSSLKSA
WAAISSHKHA RSLERSRSKG MSLKRAMLQL LVCFMVGIFI GFTPPFSVDL PGKIASENGR
LPFDGDAIDR RQMVERQGTK LEPFVAEAES EASSEPQVEE GPPVPAMLDD EADFVEASPI
VHSVNDSGIV VRKHLIIITT TSVRPHQAYY LNRLAHVLKD VPPPLLWIVA EWPYQSRETA
EILRSSGIMY RHLICNRNTT NIRKIVVCQK NNAIFHIKKH RLDGIVHFAD EERAYSADLF
EEMRKIRRFG TWPVAIHVGT KYRVVLEGPV CKGNQVTGWH TNQRRGVSRR FPIGFSGFAF
NSTILWDPQR WNSPTLESII VHSGGRGGLQ ESRFIEKLVE DESQMEGLGD NCTRVMVWNF
ELEPPQVNYP IGWLLQRNLD AVVPIT
