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

RrC2589_p5

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

GRAS

Protein Properties

Length: 183aa MW: 20374.2 Da PI: 5.2735

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2589_p5	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	219	2.4e-67	4	179	196	374
GRAS 196 vkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgre 293 ++p E+l+Vn+v++lhrll++s+s+e+ vL +vk ++P +v++veqea+hn+ Fl+rf eal+yys+lfdsle +++ s++r+ +++++lgr+ RrC2589_p5 4 TRPeSETLVVNSVFELHRLLNRSGSIEK----VLTTVKAVKPSIVTMVEQEANHNGVVFLDRFNEALHYYSSLFDSLEDSYGLLSQDRV-MSEVYLGRQ 97 56669*********************....********************************************988887775.66677 PP GRAS 294 ivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374 ivnvva+eg++r+erhetl +W+ r++++GF pvpl+++a kqa++ll+ ++ +dgyrvee++g+l+lgW++rpL+++SaW+ RrC2589_p5 98 IVNVVAAEGTDRVERHETLVQWKVRMGSVGFDPVPLGSSAFKQASMLLSVFAgGDGYRVEENDGCLMLGWQTRPLITTSAWK 179 *******************************************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	28.798	1	158	IPR005202	Transcription factor GRAS
Pfam	PF03514	8.3E-65	4	179	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 183 aa Download sequence Send to blast
MFQTRPESET LVVNSVFELH RLLNRSGSIE KVLTTVKAVK PSIVTMVEQE ANHNGVVFLD 60 RFNEALHYYS SLFDSLEDSY GLLSQDRVMS EVYLGRQIVN VVAAEGTDRV ERHETLVQWK 120 VRMGSVGFDP VPLGSSAFKQ ASMLLSVFAG GDGYRVEEND GCLMLGWQTR PLITTSAWKL 180 AGA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	1e-28	20	178	222	378	Protein SCARECROW
5b3h_A	1e-28	20	178	221	377	Protein SCARECROW
5b3h_D	1e-28	20	178	221	377	Protein SCARECROW
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Upon GA application, it is degraded by the proteasome, allowing the GA signaling pathway. Acts as a major GA-response repressor of seed germination, including seed thermoinhibition. Promotes the biosynthesis of abscisic acid (ABA), especially in seed coats to maintain seed dormancy. Delays flowering and adult leaf production. Also regulates the floral development, petal, stamen and anther development, by repressing the continued growth of floral organs. Its activity is probably regulated by other phytohormones such as auxin and ethylene. Involved in the regulation of seed dormancy and germination, including glucose-induced delay of seed germination. Promotes salt tolerance. Acts as a repressor of positive regulators of trichome initiation. Required during the flagellin-derived peptide flg22-mediated growth inhibition. Contributes to the susceptibility to the biotrophic pathogen P.syringae pv. tomato and to the resistance to the necrotrophic pathogens B.cinerea A.brassicicola, probably by repressing the SA-defense pathway and preventing cell death. Prevents stress-induced reactive oxygen species (ROS) accumulation (e.g. salt stress) by acting on the ROS scavenging system, and delays ROS-induced cell death, thus promoting stress tolerance. {ECO:0000269\|PubMed:11877383, ECO:0000269\|PubMed:12610625, ECO:0000269\|PubMed:14615596, ECO:0000269\|PubMed:14973286, ECO:0000269\|PubMed:15128937, ECO:0000269\|PubMed:16034591, ECO:0000269\|PubMed:16400150, ECO:0000269\|PubMed:16916886, ECO:0000269\|PubMed:17141619, ECO:0000269\|PubMed:17384169, ECO:0000269\|PubMed:17704233, ECO:0000269\|PubMed:18162586, ECO:0000269\|PubMed:18450450, ECO:0000269\|PubMed:18450451, ECO:0000269\|PubMed:18941053, ECO:0000269\|PubMed:20093430, ECO:0000269\|PubMed:20956298}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated transiently following seed imbibition to decline rapidly as germination proceeds; this induction is delayed at supraoptimal temperature conditions (e.g. 34 degrees Celsius). Accumulates in seed coats of dormant seeds where germination does not occur after imbibition. Increased levels upon abscisic acid (ABA) treatment. Down-regulated by norflurazon (NF), an ABA biosynthesis inhibitor. Induced by stress such as glucose, salt or mannitol treatment. {ECO:0000269\|PubMed:11877383, ECO:0000269\|PubMed:16916886, ECO:0000269\|PubMed:17384169, ECO:0000269\|PubMed:18162586, ECO:0000269\|PubMed:18450450, ECO:0000269\|PubMed:18941053, ECO:0000269\|PubMed:20956298}.

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_018485943.1	1e-128	PREDICTED: DELLA protein RGL2
Swissprot	Q8GXW1	1e-114	RGL2_ARATH; DELLA protein RGL2
TrEMBL	A0A0D3CN13	1e-122	A0A0D3CN13_BRAOL; Uncharacterized protein
STRING	Bo5g149920.1	1e-123	(Brassica oleracea)

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
AT3G03450.1	1e-116	RGA-like 2

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] 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] Hauvermale AL,Tuttle KM,Takebayashi Y,Seo M,Steber CM Loss of Arabidopsis thaliana Seed Dormancy is Associated with Increased Accumulation of the GID1 GA Hormone Receptors. Plant Cell Physiol., 2015. 56(9): p. 1773-85 [PMID:26136598] Ibarra SE, et al. Molecular mechanisms underlying the entrance in secondary dormancy of Arabidopsis seeds. Plant Cell Environ., 2016. 39(1): p. 213-21 [PMID:26177669] Zhong C, et al. Gibberellic Acid-Stimulated Arabidopsis6 Serves as an Integrator of Gibberellin, Abscisic Acid, and Glucose Signaling during Seed Germination in Arabidopsis. Plant Physiol., 2015. 169(3): p. 2288-303 [PMID:26400990] Dave A,Vaistij FE,Gilday AD,Penfield SD,Graham IA Regulation of Arabidopsis thaliana seed dormancy and germination by 12-oxo-phytodienoic acid. J. Exp. Bot., 2016. 67(8): p. 2277-84 [PMID:26873978] Kazachkova Y, et al. Salt Induces Features of a Dormancy-Like State in Seeds of Eutrema (Thellungiella) salsugineum, a Halophytic Relative of Arabidopsis. Front Plant Sci, 2016. 7: p. 1071 [PMID:27536302] Liu X, et al. The NF-YC-RGL2 module integrates GA and ABA signalling to regulate seed germination in Arabidopsis. Nat Commun, 2016. 7: p. 12768 [PMID:27624486] Ravindran P,Verma V,Stamm P,Kumar PP A Novel RGL2-DOF6 Complex Contributes to Primary Seed Dormancy in Arabidopsis thaliana by Regulating a GATA Transcription Factor. Mol Plant, 2017. 10(10): p. 1307-1320 [PMID:28917589]