PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

AA14G00090

Organism

Aethionema arabicum

Taxonomic ID

228871

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Aethionemeae; Aethionema

Family

GRAS

Protein Properties

Length: 576aa MW: 63318 Da PI: 4.5429

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AA14G00090	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	438	6.9e-134	210	569	1	373
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaN 99 lv++Ll+cAeav++++l+la+al++++ la ++ +m+++a+yf+eALa+r++r +p+++ +++ s++l++ f+e++P+lkf+h+taN AA14G00090 210 LVHTLLACAEAVQNENLTLAEALVKQIGFLAVSQSGAMRKVATYFAEALARRIYR-------LFPSQTPIDHTLSDTLQM--HFYETCPYLKFAHFTAN 299 689**************************************************.......445555555556666555..4************ PP GRAS 100 qaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp 198 qaIlea++ ++rvH+iDf+++qGlQWpaL+qaLa+Rp+gpp +R+Tg+g+p+s++ + l+e+g +La++Ae+++v+fe++ +va++l+dl++++L+++ AA14G00090 300 QAILEAFQDKNRVHVIDFSMNQGLQWPALIQALATRPGGPPAFRLTGIGPPSSDNFDYLHEVGCKLAQLAEAVNVEFEYRGFVANSLADLDVSMLQMRG 398 *******************************************************************************************9987 PP GRAS 199 ..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreiv 295 E++aVn+v++lh+ll + +++e+ vL +v++++P++++vveqe++hns+ Flerf+e+l+yys+lfdsle s++++++++++lg++i+ AA14G00090 399 neSETVAVNSVFELHKLLGRAGAIEK----VLGVVNEMKPEIFTVVEQESNHNSPVFLERFTESLHYYSSLFDSLEGV---PSSQDKVMSEVYLGKQIC 490 779***********99999999....*****************************************998...69999********* PP GRAS 296 nvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaW 373 nvvac g++r+erhetl++Wr+r+++aG+ pv +s++a kqa++ll ++ ++gy+vee++g+++lgW +rpL+++SaW AA14G00090 491 NVVACDGTDRVERHETLSQWRNRFGSAGLAPVYMSSNAFKQARMLLDVFNaGEGYQVEEKDGCMMLGWYTRPLIATSAW 569 ***************************************************************************** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	1.3E-28	24	91	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	1.2E-31	24	97	No hit	No description
PROSITE profile	PS50985	65.99	184	549	IPR005202	Transcription factor GRAS
Pfam	PF03514	2.4E-131	210	569	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 576 aa Download sequence Send to blast
MKRDHLEEEE EECGGGGGGG GGMDELLAVL GYKVRSSQMA DVALKLEQLE EIMGNAPEDG 60 FPHLPDHTLH YNPSELYSWL DTISSDLNPP PPSASASDND IDHSFFSLRD SSTITSVGFG 120 APIQQSRILC QQSSLDSDLN SIPGNAIYSQ PPSDIQFGID SSSDQIENTS SKRLKCSTSD 180 SMIVSTSTAT TTESTRSVIL VDSQENGVRL VHTLLACAEA VQNENLTLAE ALVKQIGFLA 240 VSQSGAMRKV ATYFAEALAR RIYRLFPSQT PIDHTLSDTL QMHFYETCPY LKFAHFTANQ 300 AILEAFQDKN RVHVIDFSMN QGLQWPALIQ ALATRPGGPP AFRLTGIGPP SSDNFDYLHE 360 VGCKLAQLAE AVNVEFEYRG FVANSLADLD VSMLQMRGNE SETVAVNSVF ELHKLLGRAG 420 AIEKVLGVVN EMKPEIFTVV EQESNHNSPV FLERFTESLH YYSSLFDSLE GVPSSQDKVM 480 SEVYLGKQIC NVVACDGTDR VERHETLSQW RNRFGSAGLA PVYMSSNAFK QARMLLDVFN 540 AGEGYQVEEK DGCMMLGWYT RPLIATSAWN LSTKPL

Sequence ? help Back to Top

Protein Sequence Length: 576 aa Download sequence Send to blast

MKRDHLEEEE EECGGGGGGG GGMDELLAVL GYKVRSSQMA DVALKLEQLE EIMGNAPEDG  60
FPHLPDHTLH YNPSELYSWL DTISSDLNPP PPSASASDND IDHSFFSLRD SSTITSVGFG  120
APIQQSRILC QQSSLDSDLN SIPGNAIYSQ PPSDIQFGID SSSDQIENTS SKRLKCSTSD  180
SMIVSTSTAT TTESTRSVIL VDSQENGVRL VHTLLACAEA VQNENLTLAE ALVKQIGFLA  240
VSQSGAMRKV ATYFAEALAR RIYRLFPSQT PIDHTLSDTL QMHFYETCPY LKFAHFTANQ  300
AILEAFQDKN RVHVIDFSMN QGLQWPALIQ ALATRPGGPP AFRLTGIGPP SSDNFDYLHE  360
VGCKLAQLAE AVNVEFEYRG FVANSLADLD VSMLQMRGNE SETVAVNSVF ELHKLLGRAG  420
AIEKVLGVVN EMKPEIFTVV EQESNHNSPV FLERFTESLH YYSSLFDSLE GVPSSQDKVM  480
SEVYLGKQIC NVVACDGTDR VERHETLSQW RNRFGSAGLA PVYMSSNAFK QARMLLDVFN  540
AGEGYQVEEK DGCMMLGWYT RPLIATSAWN LSTKPL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	1e-63	205	570	14	379	Protein SCARECROW
5b3h_A	9e-64	205	570	13	378	Protein SCARECROW
5b3h_D	9e-64	205	570	13	378	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Positively regulates XERICO expression in seeds. Upon GA application, it is degraded by the proteasome, allowing the GA signaling pathway. Compared to other DELLA proteins, it is the most sensitive to GA application. No effect of the BOI proteins on its stability. Its activity is probably regulated by other phytohormones such as auxin and ethylene, attenuation of auxin transport delaying its GA-induced degradation. {ECO:0000269\|PubMed:11606551, ECO:0000269\|PubMed:11606552, ECO:0000269\|PubMed:12610625, ECO:0000269\|PubMed:14615596, ECO:0000269\|PubMed:14973286, ECO:0000269\|PubMed:15128937, ECO:0000269\|PubMed:16034591, ECO:0000269\|PubMed:17933900, ECO:0000269\|PubMed:20093430, ECO:0000269\|PubMed:9490740}.
UniProt	Transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. Transcription coactivator of the zinc finger transcription factors GAF1/IDD2 and ENY/IDD1 in regulation of gibberellin homeostasis and signaling (PubMed:25035403). No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Positively regulates XERICO expression. In contrast to RGA, it is less sensitive to GA. Its activity is probably regulated by other phytohormones such as auxin and ethylene. {ECO:0000269\|PubMed:11487693, ECO:0000269\|PubMed:11606551, ECO:0000269\|PubMed:11606552, ECO:0000269\|PubMed:14973286, ECO:0000269\|PubMed:15128937, ECO:0000269\|PubMed:16034591, ECO:0000269\|PubMed:17933900, ECO:0000269\|PubMed:25035403, ECO:0000269\|PubMed:9389651}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AA14G00090

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010554410.1	0.0	PREDICTED: DELLA protein GAI-like
Swissprot	Q9LQT8	0.0	GAI_ARATH; DELLA protein GAI
Swissprot	Q9SLH3	0.0	RGA_ARATH; DELLA protein RGA
TrEMBL	A0A1J3II22	0.0	A0A1J3II22_NOCCA; DELLA protein RGA2
STRING	XP_010554410.1	0.0	(Tarenaya hassleriana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM837	28	121

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14920.1	0.0	GRAS family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Stewart Lilley JL,Gan Y,Graham IA,Nemhauser JL The effects of DELLAs on growth change with developmental stage and brassinosteroid levels. Plant J., 2013. 76(1): p. 165-73 [PMID:23834248] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Oh E, et al. Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl. Elife, 2015. [PMID:24867218] Gallego-Giraldo C, et al. Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis. Plant J., 2014. 79(6): p. 1020-1032 [PMID:24961590] Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Tan L,Rong W,Luo H,Chen Y,He C The Xanthomonas campestris effector protein XopDXcc8004 triggers plant disease tolerance by targeting DELLA proteins. New Phytol., 2014. 204(3): p. 595-608 [PMID:25040905] Urano D,Dong T,Bennetzen JL,Jones AM Adaptive evolution of signaling partners. Mol. Biol. Evol., 2015. 32(4): p. 998-1007 [PMID:25568345] Montenegro-Johnson TD, et al. Digital Single-Cell Analysis of Plant Organ Development Using 3DCellAtlas. Plant Cell, 2015. 27(4): p. 1018-33 [PMID:25901089] Kim SI, et al. E3 SUMO ligase AtSIZ1 positively regulates SLY1-mediated GA signalling and plant development. Biochem. J., 2015. 469(2): p. 299-314 [PMID:26008766] Marín-de la Rosa N, et al. Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins. PLoS Genet., 2015. 11(7): p. e1005337 [PMID:26134422] Xu F, et al. DELLA proteins physically interact with CONSTANS to regulate flowering under long days in Arabidopsis. FEBS Lett., 2016. 590(4): p. 541-9 [PMID:26801684] Moubayidin L, et al. A SCARECROW-based regulatory circuit controls Arabidopsis thaliana meristem size from the root endodermis. Planta, 2016. 243(5): p. 1159-68 [PMID:26848984] Xie Y,Tan H,Ma Z,Huang J DELLA Proteins Promote Anthocyanin Biosynthesis via Sequestering MYBL2 and JAZ Suppressors of the MYB/bHLH/WD40 Complex in Arabidopsis thaliana. Mol Plant, 2016. 9(5): p. 711-721 [PMID:26854848] Shi H,Wei Y,Wang Q,Reiter RJ,He C Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis. J. Pineal Res., 2016. 60(3): p. 373-9 [PMID:26887824] Lee SA, et al. Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue. Mol Plant, 2016. 9(6): p. 870-84 [PMID:26970019] Qu J,Kang SG,Hah C,Jang JC Molecular and cellular characterization of GA-Stimulated Transcripts GASA4 and GASA6 in Arabidopsis thaliana. Plant Sci., 2016. 246: p. 1-10 [PMID:26993231] Shahnejat-Bushehri S,Nobmann B,Devi Allu A,Balazadeh S JUB1 suppresses Pseudomonas syringae-induced defense responses through accumulation of DELLA proteins. Plant Signal Behav, 2016. 11(6): p. e1181245 [PMID:27159137] Shahnejat-Bushehri S,Tarkowska D,Sakuraba Y,Balazadeh S Arabidopsis NAC transcription factor JUB1 regulates GA/BR metabolism and signalling. Nat Plants, 2016. 2: p. 16013 [PMID:27249348] Wang H, et al. The DELLA-CONSTANS Transcription Factor Cascade Integrates Gibberellic Acid and Photoperiod Signaling to Regulate Flowering. Plant Physiol., 2016. 172(1): p. 479-88 [PMID:27406167] Li W,Wang H,Yu D Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions. Mol Plant, 2016. 9(11): p. 1492-1503 [PMID:27592586] Liu B,De Storme N,Geelen D Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis. Plant Physiol., 2017. 173(1): p. 338-353 [PMID:27621423] Jiang K, et al. Substituted Phthalimide AC94377 Is a Selective Agonist of the Gibberellin Receptor GID1. Plant Physiol., 2017. 173(1): p. 825-835 [PMID:27899534] Matsuoka K, et al. Differential Cellular Control by Cotyledon-Derived Phytohormones Involved in Graft Reunion of Arabidopsis Hypocotyls. Plant Cell Physiol., 2016. 57(12): p. 2620-2631 [PMID:27986917] Zentella R, et al. The Arabidopsis O-fucosyltransferase SPINDLY activates nuclear growth repressor DELLA. Nat. Chem. Biol., 2017. 13(5): p. 479-485 [PMID:28244988] Zhang Y, et al. GA-DELLA pathway is involved in regulation of nitrogen deficiency-induced anthocyanin accumulation. Plant Cell Rep., 2017. 36(4): p. 557-569 [PMID:28275852] Zhang L,Chen L,Yu D Transcription Factor WRKY75 Interacts with DELLA Proteins to Affect Flowering. Plant Physiol., 2018. 176(1): p. 790-803 [PMID:29133369] Zheng H, et al. MLK1 and MLK2 Coordinate RGA and CCA1 Activity to Regulate Hypocotyl Elongation in Arabidopsis thaliana. Plant Cell, 2018. 30(1): p. 67-82 [PMID:29255112] Nelson SK,Ariizumi T,Steber CM Biology in the Dry Seed: Transcriptome Changes Associated with Dry Seed Dormancy and Dormancy Loss in the Arabidopsis GA-Insensitive sleepy1-2 Mutant. Front Plant Sci, 2017. 8: p. 2158 [PMID:29312402] Yamazaki K, et al. Suppression of DELLA signaling induces procambial cell formation in culture. Plant J., 2018. 94(1): p. 48-59 [PMID:29383774] Liu B,De Storme N,Geelen D Cold-Induced Male Meiotic Restitution in Arabidopsis thaliana Is Not Mediated by GA-DELLA Signaling. Front Plant Sci, 2018. 9: p. 91 [PMID:29459879] Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana. Plant Cell Rep., 2018. 37(6): p. 901-912 [PMID:29541883] Zhang Y, et al. DELLA proteins negatively regulate dark-induced senescence and chlorophyll degradation in Arabidopsis through interaction with the transcription factor WRKY6. Plant Cell Rep., 2018. 37(7): p. 981-992 [PMID:29574486] Felipo-Benavent A, et al. Regulation of xylem fiber differentiation by gibberellins through DELLA-KNAT1 interaction. Development, 2019. [PMID:30389856] Wright DA, et al. Recovery of YAC-end sequences through complementation of an Escherichia coli pyrF mutation. Nucleic Acids Res., 1997. 25(13): p. 2679-80 [PMID:9185581]