HMG13_ARATH
ID HMG13_ARATH Reviewed; 446 AA.
AC Q9T012; O82510; Q700E0;
DT 02-NOV-2010, integrated into UniProtKB/Swiss-Prot.
DT 01-MAY-2000, sequence version 1.
DT 25-MAY-2022, entry version 128.
DE RecName: Full=High mobility group B protein 13;
DE AltName: Full=Nucleosome/chromatin assembly factor group D 13;
GN Name=HMGB13; Synonyms=NFD13; OrderedLocusNames=At4g11080;
GN ORFNames=F2P3.3, T22B4.60;
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=10617198; DOI=10.1038/47134;
RA Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T.,
RA Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B.,
RA Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M.,
RA de Simone V., Obermaier B., Mache R., Mueller M., Kreis M., Delseny M.,
RA Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D.,
RA Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J.,
RA Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B.,
RA Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J.,
RA Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R.,
RA Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M.,
RA Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P.,
RA Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C.,
RA Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J.,
RA Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S.,
RA Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A.,
RA Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M.,
RA Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D.,
RA Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E.,
RA Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S.,
RA Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R.,
RA Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M.,
RA Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E.,
RA Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P.,
RA Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K.,
RA Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K.,
RA de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K.,
RA Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M.,
RA Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G.,
RA Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K.,
RA Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K.,
RA Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W.,
RA Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H.,
RA Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B.,
RA Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J.,
RA Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K.,
RA O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N.,
RA Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A.,
RA Martienssen R., McCombie W.R.;
RT "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana.";
RL Nature 402:769-777(1999).
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 NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=15208423; DOI=10.1104/pp.104.042176;
RA Gong W., Shen Y.-P., Ma L.-G., Pan Y., Du Y.-L., Wang D.-H., Yang J.-Y.,
RA Hu L.-D., Liu X.-F., Dong C.-X., Ma L., Chen Y.-H., Yang X.-Y., Gao Y.,
RA Zhu D., Tan X., Mu J.-Y., Zhang D.-B., Liu Y.-L., Dinesh-Kumar S.P., Li Y.,
RA Wang X.-P., Gu H.-Y., Qu L.-J., Bai S.-N., Lu Y.-T., Li J.-Y., Zhao J.-D.,
RA Zuo J., Huang H., Deng X.-W., Zhu Y.-X.;
RT "Genome-wide ORFeome cloning and analysis of Arabidopsis transcription
RT factor genes.";
RL Plant Physiol. 135:773-782(2004).
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00267}.
CC -!- SIMILARITY: Belongs to the HMGB family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAC35540.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AF080120; AAC35540.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL049876; CAB43043.1; -; Genomic_DNA.
DR EMBL; AL161531; CAB81209.1; -; Genomic_DNA.
DR EMBL; CP002687; AEE82970.1; -; Genomic_DNA.
DR EMBL; AY133687; AAM91621.1; -; mRNA.
DR EMBL; AJ630485; CAG25858.1; -; mRNA.
DR EMBL; AY568657; AAS79547.1; -; mRNA.
DR PIR; T01926; T01926.
DR PIR; T08187; T08187.
DR RefSeq; NP_192846.1; NM_117178.3.
DR AlphaFoldDB; Q9T012; -.
DR SMR; Q9T012; -.
DR BioGRID; 12008; 1.
DR IntAct; Q9T012; 1.
DR STRING; 3702.AT4G11080.1; -.
DR iPTMnet; Q9T012; -.
DR PaxDb; Q9T012; -.
DR PRIDE; Q9T012; -.
DR EnsemblPlants; AT4G11080.1; AT4G11080.1; AT4G11080.
DR GeneID; 826709; -.
DR Gramene; AT4G11080.1; AT4G11080.1; AT4G11080.
DR KEGG; ath:AT4G11080; -.
DR Araport; AT4G11080; -.
DR TAIR; locus:2136103; AT4G11080.
DR eggNOG; KOG0381; Eukaryota.
DR HOGENOM; CLU_041972_2_0_1; -.
DR InParanoid; Q9T012; -.
DR OMA; YFVYSQE; -.
DR OrthoDB; 1641977at2759; -.
DR PhylomeDB; Q9T012; -.
DR PRO; PR:Q9T012; -.
DR Proteomes; UP000006548; Chromosome 4.
DR ExpressionAtlas; Q9T012; baseline and differential.
DR Genevisible; Q9T012; AT.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:TAIR.
DR Gene3D; 1.10.30.10; -; 3.
DR InterPro; IPR009071; HMG_box_dom.
DR InterPro; IPR036910; HMG_box_dom_sf.
DR InterPro; IPR044601; HMGB6/HMGB13.
DR PANTHER; PTHR46912; PTHR46912; 1.
DR Pfam; PF00505; HMG_box; 3.
DR SMART; SM00398; HMG; 3.
DR SUPFAM; SSF47095; SSF47095; 3.
DR PROSITE; PS50118; HMG_BOX_2; 3.
PE 2: Evidence at transcript level;
KW DNA-binding; Nucleus; Reference proteome; Repeat.
FT CHAIN 1..446
FT /note="High mobility group B protein 13"
FT /id="PRO_0000399938"
FT DNA_BIND 129..197
FT /note="HMG box 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00267"
FT DNA_BIND 246..312
FT /note="HMG box 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00267"
FT DNA_BIND 372..440
FT /note="HMG box 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00267"
FT REGION 1..43
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 110..130
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 349..378
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 20..43
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 113..130
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 349..370
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 30
FT /note="S -> SSPLL (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 35
FT /note="D -> G (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 40
FT /note="T -> S (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 129
FT /note="T -> I (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 153
FT /note="E -> D (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 229..231
FT /note="AEH -> GEQ (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 277..278
FT /note="MA -> IT (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 289
FT /note="K -> Q (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 295
FT /note="Q -> K (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 407
FT /note="S -> T (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
FT CONFLICT 427
FT /note="E -> A (in Ref. 4; CAG25858/AAS79547)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 446 AA; 52303 MW; E24414799F7ACEE7 CRC64;
MSTVSSDPAH AKKSRNSRKA LKQKNEIVES SPVSDKGKET KSFEKDLMEM QAMLEKMKIE
KEKTEDLLKE KDEILRKKEV EQEKLKTELK KLQKMKEFKP NMTFAFSQSL AQTEEEKKGK
KKKKDCAETK RPSTPYILWC KDNWNEVKKQ NPEADFKETS NILGAKWKGI SAEEKKPYEE
KYQADKEAYL QVITKEKRER EAMKLLDDEQ KQKTAMELLD QYLHFVQEAE HDNKKKAKKI
KDPLKPKQPI SAYLIYANER RAALKGENKS VIEVAKMAGE EWKNLSEEKK APYDQMAKKN
KEIYLQEMEG YKRTKEEEAM SQKKEEEEFM KLHKQEALQL LKKKEKTDNI IKKTKETAKN
KKKNENVDPN KPKKPTSSYF LFCKDARKSV LEEHPGINNS TVTAHISLKW MELGEEEKQV
YNSKAAELME AYKKEVEEYN KTKTSS
