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

Thhalv10007323m

Common Name

EUTSA_v10007323mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

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

Family

GRAS

Protein Properties

Length: 536aa MW: 59260.1 Da PI: 5.4323

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10007323m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	442.3	3.3e-135	166	526	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetsekn.sseelaalklfsevsPilkf 93 lv++Ll+cAeav+++dl+la+al++++ la ++ +m+++a+yf+eALa+r+++ l+ps+++ ++ s++l++ f+e++P+lkf Thhalv10007323m 166 LVHALLACAEAVQKDDLNLAEALVKQIGFLAVSQVGAMRKVATYFAEALARRIYH--------LRPSRSPIDHsLSDTLQM--HFYETCPYLKF 249 689*************************************************9........666666543314444433..5****** PP GRAS 94 shltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrle 187 +h+taNqaIlea++g++rvH+iDf+++qGlQWpaL+qaLa Rp+gpp +R+Tg+g+p++++ + l+e+g +La++Ae+++v+fe++ +va++l+ Thhalv10007323m 250 AHFTANQAILEAFQGKKRVHVIDFSMNQGLQWPALMQALALRPGGPPIFRLTGIGPPAPDNFDYLHEVGCKLAHLAEAIHVEFEYRGFVANTLA 343 ****************************************************************************************** PP GRAS 188 dleleeLrvkp..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpres 279 dl+ ++L+++p E++aVn+v++lh+ll +++++e+ vL +v++++P++++vveqe++hns+ Fl+rf+e+l+yys+lfdsle s Thhalv10007323m 344 DLDASMLELRPseIESVAVNSVFELHKLLGRPGAIEK----VLGVVNQIKPEIFTVVEQESNHNSPVFLDRFTESLHYYSSLFDSLEGV---PS 430 ******98889****************99....*****************************************998...69 PP GRAS 280 eerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSa 372 ++++++++++lg++i+nvvac g +r+erhetl++Wr+r+++aGF++++++++a kqa++ll+ ++ ++gyrvee++g+l+lgW++rpL+++Sa Thhalv10007323m 431 SQDKVMSEVYLGKQICNVVACDGPDRVERHETLSQWRNRFGSAGFSAAHIGSNAFKQASMLLALFNsGEGYRVEESDGCLMLGWHTRPLIATSA 524 999***************************************************************************************** PP GRAS 373 Wr 374 W+ Thhalv10007323m 525 WK 526 *8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	2.0E-32	22	89	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	7.8E-39	22	95	No hit	No description
PROSITE profile	PS50985	64.856	140	505	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.1E-132	166	526	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006808	Biological Process	regulation of nitrogen utilization
GO:0009723	Biological Process	response to ethylene
GO:0009737	Biological Process	response to abscisic acid
GO:0009863	Biological Process	salicylic acid mediated signaling pathway
GO:0009867	Biological Process	jasmonic acid mediated signaling pathway
GO:0009938	Biological Process	negative regulation of gibberellic acid mediated signaling pathway
GO:0010187	Biological Process	negative regulation of seed germination
GO:0010218	Biological Process	response to far red light
GO:0010233	Biological Process	phloem transport
GO:0042538	Biological Process	hyperosmotic salinity response
GO:2000033	Biological Process	regulation of seed dormancy process
GO:2000377	Biological Process	regulation of reactive oxygen species metabolic process
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 536 aa Download sequence Send to blast
MKRDQNHFFQ GDKTMKEEDG MDELLAVLGY KVQSSEMAEV AQKLEQLEVM MSNVREDDLS 60 QLATRTVHYN PSQLYTWLDS MLSDLNPPSS ADDYDLKAIP GDAILNQFAT DSSSSSSNQG 120 TNNKRLKCSS SDSMVVSTSP AAVATTTTEP TRAFVLVDSQ ENGVRLVHAL LACAEAVQKD 180 DLNLAEALVK QIGFLAVSQV GAMRKVATYF AEALARRIYH LRPSRSPIDH SLSDTLQMHF 240 YETCPYLKFA HFTANQAILE AFQGKKRVHV IDFSMNQGLQ WPALMQALAL RPGGPPIFRL 300 TGIGPPAPDN FDYLHEVGCK LAHLAEAIHV EFEYRGFVAN TLADLDASML ELRPSEIESV 360 AVNSVFELHK LLGRPGAIEK VLGVVNQIKP EIFTVVEQES NHNSPVFLDR FTESLHYYSS 420 LFDSLEGVPS SQDKVMSEVY LGKQICNVVA CDGPDRVERH ETLSQWRNRF GSAGFSAAHI 480 GSNAFKQASM LLALFNSGEG YRVEESDGCL MLGWHTRPLI ATSAWKLSTN QMVSH*

Sequence ? help Back to Top

Protein Sequence Length: 536 aa Download sequence Send to blast

MKRDQNHFFQ GDKTMKEEDG MDELLAVLGY KVQSSEMAEV AQKLEQLEVM MSNVREDDLS  60
QLATRTVHYN PSQLYTWLDS MLSDLNPPSS ADDYDLKAIP GDAILNQFAT DSSSSSSNQG  120
TNNKRLKCSS SDSMVVSTSP AAVATTTTEP TRAFVLVDSQ ENGVRLVHAL LACAEAVQKD  180
DLNLAEALVK QIGFLAVSQV GAMRKVATYF AEALARRIYH LRPSRSPIDH SLSDTLQMHF  240
YETCPYLKFA HFTANQAILE AFQGKKRVHV IDFSMNQGLQ WPALMQALAL RPGGPPIFRL  300
TGIGPPAPDN FDYLHEVGCK LAHLAEAIHV EFEYRGFVAN TLADLDASML ELRPSEIESV  360
AVNSVFELHK LLGRPGAIEK VLGVVNQIKP EIFTVVEQES NHNSPVFLDR FTESLHYYSS  420
LFDSLEGVPS SQDKVMSEVY LGKQICNVVA CDGPDRVERH ETLSQWRNRF GSAGFSAAHI  480
GSNAFKQASM LLALFNSGEG YRVEESDGCL MLGWHTRPLI ATSAWKLSTN QMVSH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	2e-66	161	525	14	378	Protein SCARECROW
5b3h_A	2e-66	161	525	13	377	Protein SCARECROW
5b3h_D	2e-66	161	525	13	377	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
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	Thhalv10007323m

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353340	0.0	AK353340.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-41-B18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006416958.1	0.0	DELLA protein GAI
Swissprot	Q9LQT8	0.0	GAI_ARATH; DELLA protein GAI
TrEMBL	E4MXU3	0.0	E4MXU3_EUTHA; mRNA, clone: RTFL01-41-B18
TrEMBL	V4MTW7	0.0	V4MTW7_EUTSA; Uncharacterized protein
STRING	XP_006416958.1	0.0	(Eutrema salsugineum)

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

Link Out ? help Back to Top
Phytozome	Thhalv10007323m
Entrez Gene	18993374

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] 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] 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] 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] 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] 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] 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]