HMGYA_ARATH
ID HMGYA_ARATH Reviewed; 204 AA.
AC Q43386; P92954; Q8LGC1;
DT 11-NOV-2015, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1996, sequence version 1.
DT 03-AUG-2022, entry version 172.
DE RecName: Full=HMG-Y-related protein A;
DE Short=AtHMGA;
DE AltName: Full=High mobility group A protein;
GN Name=HMGA; OrderedLocusNames=At1g14900 {ECO:0000312|EMBL:AEE29240.1};
GN ORFNames=F10B6.31 {ECO:0000312|EMBL:AAF79232.1};
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 {ECO:0000312|EMBL:CAA67564.1};
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1), AND TISSUE
RP SPECIFICITY.
RC STRAIN=cv. Columbia, and cv. Landsberg erecta; TISSUE=Seedling;
RX PubMed=9225863; DOI=10.1023/a:1005828430861;
RA Gupta R., Webster C.I., Walker A.R., Gray J.C.;
RT "Chromosomal location and expression of the single-copy gene encoding high-
RT mobility-group protein HMG-I/Y in Arabidopsis thaliana.";
RL Plant Mol. Biol. 34:529-536(1997).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=cv. Columbia;
RA Ascenzi R., Gantt J.S.;
RT "Analysis of an HMG gene from Arabidopsis.";
RL Submitted (JAN-1998) to the EMBL/GenBank/DDBJ databases.
RN [3]
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 [4]
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 [5]
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 [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC STRAIN=cv. Columbia; TISSUE=Rosette leaf;
RX PubMed=19423640; DOI=10.1093/dnares/dsp009;
RA Iida K., Fukami-Kobayashi K., Toyoda A., Sakaki Y., Kobayashi M., Seki M.,
RA Shinozaki K.;
RT "Analysis of multiple occurrences of alternative splicing events in
RT Arabidopsis thaliana using novel sequenced full-length cDNAs.";
RL DNA Res. 16:155-164(2009).
RN [7]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
RN [8]
RP FUNCTION, MUTAGENESIS OF ARG-98 AND ARG-164, AND SUBCELLULAR LOCATION.
RX PubMed=17114349; DOI=10.1105/tpc.106.047274;
RA Launholt D., Merkle T., Houben A., Schulz A., Grasser K.D.;
RT "Arabidopsis chromatin-associated HMGA and HMGB use different nuclear
RT targeting signals and display highly dynamic localization within the
RT nucleus.";
RL Plant Cell 18:2904-2918(2006).
RN [9]
RP TISSUE SPECIFICITY.
RC STRAIN=cv. Columbia;
RX PubMed=17316617; DOI=10.1016/j.febslet.2007.02.015;
RA Launholt D., Groenlund J.T., Nielsen H.K., Grasser K.D.;
RT "Overlapping expression patterns among the genes encoding Arabidopsis
RT chromosomal high mobility group (HMG) proteins.";
RL FEBS Lett. 581:1114-1118(2007).
CC -!- FUNCTION: Binds A/T-rich DNA with a highly dynamic distribution into
CC the nucleus. {ECO:0000269|PubMed:17114349}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00837,
CC ECO:0000269|PubMed:17114349}. Nucleus, nucleolus
CC {ECO:0000250|UniProtKB:Q9FYS5}. Note=Follows a highly dynamic speckled
CC distribution pattern throughout the chromatin of interphase nuclei.
CC {ECO:0000269|PubMed:17114349}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q43386-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q43386-2; Sequence=VSP_057977;
CC -!- TISSUE SPECIFICITY: Mostly expressed in flowers (especially in styles
CC and filaments, and, at lower levels, in sepals and ovaries) and
CC developing siliques, and, to a lower extent, in leaves, cotyledons,
CC lateral roots and root tips. {ECO:0000269|PubMed:17316617,
CC ECO:0000269|PubMed:9225863}.
CC -!- PTM: Acetylated. {ECO:0000250|UniProtKB:Q9FYS5}.
CC -!- SIMILARITY: Belongs to the HMGA family. {ECO:0000305}.
CC -!- CAUTION: Lacks phosphorylation sites present in ortholog HMGA proteins.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAM60937.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
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DR EMBL; Y10836; CAA71797.1; -; Genomic_DNA.
DR EMBL; X99116; CAA67564.1; -; mRNA.
DR EMBL; AF041253; AAB97739.1; -; Genomic_DNA.
DR EMBL; AC006917; AAF79232.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE29240.1; -; Genomic_DNA.
DR EMBL; BT004806; AAO44072.1; -; mRNA.
DR EMBL; AK317240; BAH19921.1; -; mRNA.
DR EMBL; AK319041; BAH57156.1; -; mRNA.
DR EMBL; AY084355; AAM60937.1; ALT_INIT; mRNA.
DR RefSeq; NP_172943.1; NM_101359.4. [Q43386-1]
DR AlphaFoldDB; Q43386; -.
DR SMR; Q43386; -.
DR IntAct; Q43386; 4.
DR STRING; 3702.AT1G14900.1; -.
DR iPTMnet; Q43386; -.
DR PaxDb; Q43386; -.
DR PRIDE; Q43386; -.
DR ProteomicsDB; 230260; -. [Q43386-1]
DR EnsemblPlants; AT1G14900.1; AT1G14900.1; AT1G14900. [Q43386-1]
DR GeneID; 838055; -.
DR Gramene; AT1G14900.1; AT1G14900.1; AT1G14900. [Q43386-1]
DR KEGG; ath:AT1G14900; -.
DR Araport; AT1G14900; -.
DR TAIR; locus:2006862; AT1G14900.
DR eggNOG; ENOG502RXFH; Eukaryota.
DR HOGENOM; CLU_078915_0_0_1; -.
DR InParanoid; Q43386; -.
DR OMA; QSGQIVM; -.
DR OrthoDB; 1582143at2759; -.
DR PRO; PR:Q43386; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q43386; baseline and differential.
DR Genevisible; Q43386; AT.
DR GO; GO:0005730; C:nucleolus; IDA:TAIR.
DR GO; GO:0000786; C:nucleosome; IEA:InterPro.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0003677; F:DNA binding; IDA:TAIR.
DR GO; GO:0003690; F:double-stranded DNA binding; IBA:GO_Central.
DR GO; GO:0031492; F:nucleosomal DNA binding; IBA:GO_Central.
DR GO; GO:0030261; P:chromosome condensation; IBA:GO_Central.
DR GO; GO:0045910; P:negative regulation of DNA recombination; IBA:GO_Central.
DR GO; GO:0006334; P:nucleosome assembly; IEA:InterPro.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:InterPro.
DR Gene3D; 1.10.10.10; -; 1.
DR InterPro; IPR017956; AT_hook_DNA-bd_motif.
DR InterPro; IPR005818; Histone_H1/H5_H15.
DR InterPro; IPR000116; HMGA.
DR InterPro; IPR031059; HMGA_plant.
DR InterPro; IPR036388; WH-like_DNA-bd_sf.
DR InterPro; IPR036390; WH_DNA-bd_sf.
DR PANTHER; PTHR11467:SF103; PTHR11467:SF103; 1.
DR Pfam; PF00538; Linker_histone; 1.
DR PRINTS; PR00929; ATHOOK.
DR PRINTS; PR00930; HIGHMOBLTYIY.
DR SMART; SM00384; AT_hook; 4.
DR SMART; SM00526; H15; 1.
DR SUPFAM; SSF46785; SSF46785; 1.
DR PROSITE; PS51504; H15; 1.
PE 1: Evidence at protein level;
KW Acetylation; Alternative splicing; DNA-binding; Nucleus;
KW Reference proteome; Repeat.
FT CHAIN 1..204
FT /note="HMG-Y-related protein A"
FT /id="PRO_0000434725"
FT DOMAIN 22..91
FT /note="H15"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00837"
FT DNA_BIND 97..105
FT /note="A.T hook 1"
FT /evidence="ECO:0000305"
FT DNA_BIND 130..138
FT /note="A.T hook 2"
FT /evidence="ECO:0000305"
FT DNA_BIND 155..163
FT /note="A.T hook 3"
FT /evidence="ECO:0000305"
FT DNA_BIND 183..193
FT /note="A.T hook 4"
FT /evidence="ECO:0000305"
FT REGION 1..23
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 86..204
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 96..102
FT /note="Nuclear localization signal 1 (NLS)"
FT /evidence="ECO:0000269|PubMed:17114349"
FT MOTIF 162..166
FT /note="Nuclear localization signal 2 (NLS)"
FT /evidence="ECO:0000269|PubMed:17114349"
FT COMPBIAS 91..107
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..28
FT /note="Missing (in isoform 2)"
FT /id="VSP_057977"
FT MUTAGEN 98
FT /note="R->G: Loss of the nuclear accumulation."
FT /evidence="ECO:0000269|PubMed:17114349"
FT MUTAGEN 164
FT /note="R->G: Loss of the nuclear accumulation."
FT /evidence="ECO:0000269|PubMed:17114349"
FT CONFLICT 64
FT /note="M -> T (in Ref. 1; CAA71797)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 204 AA; 22011 MW; 687C24CB6A9AA437 CRC64;
MAFDLHHGSA SDTHSSELPS FSLPPYPQMI MEAIESLNDK NGCNKTTIAK HIESTQQTLP
PSHMTLLSYH LNQMKKTGQL IMVKNNYMKP DPDAPPKRGR GRPPKQKTQA ESDAAAAAVV
AATVVSTDPP RSRGRPPKPK DPSEPPQEKV ITGSGRPRGR PPKRPRTDSE TVAAPEPAAQ
ATGERRGRGR PPKVKPTVVA PVGC
