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

Vradi08g15350.1

Organism

Vigna radiata

Taxonomic ID

157791

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

GRAS

Protein Properties

Length: 491aa MW: 54141.4 Da PI: 5.2074

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi08g15350.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	420.1	1.9e-128	119	476	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdg..dpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilk 92 lv++L++cA+ v+ gdl+ a +l++ ++ l + + ++a yf AL++r+++ ++a+p+s+ e+ ++ ++e++P+lk Vradi08g15350.1 119 LVHTLITCADSVQRGDLAFAGSLIESMQALLAHVNtsCGIGKVAGYFIDALRRRISS---PQSAAFPTSPY------ENDVLYHHYYEACPYLK 203 689************************944444136899***********9...23334444444......344567789**** PP GRAS 93 fshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrl 186 f+h+taNqaIlea++g+++vH+iDf+++qGlQWpaL+qaLa Rp+gppslR+Tgvg+p+++++++l+e+g rLa++A++++v+f f+ ++a rl Vradi08g15350.1 204 FAHFTANQAILEAFNGHDCVHVIDFNLMQGLQWPALIQALALRPGGPPSLRLTGVGPPSPDERDTLREIGARLAELAHSVNVRFTFRGVAAWRL 297 ************************************************************************************9888 PP GRAS 187 edleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklprese 280 ed+++++L+v+p+Ea+aVn+++qlhr+l s +d+vL +++l+Pk+v vveqea+hn+esFlerf+eal+yys++fdslea e Vradi08g15350.1 298 EDVKPWMLQVSPKEAVAVNSIMQLHRVL------GSGIDTVLGWIRGLNPKIVAVVEQEANHNGESFLERFTEALHYYSTVFDSLEAC---SVE 382 *************************9......556789*****************************************998...357 PP GRAS 281 erikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 ++ + +++l+rei+nvv+ceg +r erhe l kWrerl++aGF+p++l+++a+kqa++ll ++ +gy vee++g+l+lgW++rpL+++SaW+ Vradi08g15350.1 383 PDKGLAEMYLQREICNVVCCEGPARLERHEPLVKWRERLGRAGFRPLHLGSNAYKQASMLLTLFSAEGYCVEENQGCLTLGWHSRPLIAASAWQ 476 788889999**********************************************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	2.6E-24	14	83	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	6.1E-7	14	90	No hit	No description
PROSITE profile	PS50985	62.854	93	456	IPR005202	Transcription factor GRAS
Pfam	PF03514	6.4E-126	119	476	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 491 aa Download sequence Send to blast
MNGSSSESKT RDMDGQLAGL GYKVRSSELC QVAENMERLE NAINTVNSSR DISQVVSDAL 60 LYDPSNIGLG SWVDTLLSEL DQTVSLPYDL SSDLPDLPTD PNRQLGMVTT VEEDSGIRLV 120 HTLITCADSV QRGDLAFAGS LIESMQALLA HVNTSCGIGK VAGYFIDALR RRISSPQSAA 180 FPTSPYENDV LYHHYYEACP YLKFAHFTAN QAILEAFNGH DCVHVIDFNL MQGLQWPALI 240 QALALRPGGP PSLRLTGVGP PSPDERDTLR EIGARLAELA HSVNVRFTFR GVAAWRLEDV 300 KPWMLQVSPK EAVAVNSIMQ LHRVLGSGID TVLGWIRGLN PKIVAVVEQE ANHNGESFLE 360 RFTEALHYYS TVFDSLEACS VEPDKGLAEM YLQREICNVV CCEGPARLER HEPLVKWRER 420 LGRAGFRPLH LGSNAYKQAS MLLTLFSAEG YCVEENQGCL TLGWHSRPLI AASAWQAAPL 480 REGETVRFQR *

Sequence ? help Back to Top

Protein Sequence Length: 491 aa Download sequence Send to blast

MNGSSSESKT RDMDGQLAGL GYKVRSSELC QVAENMERLE NAINTVNSSR DISQVVSDAL  60
LYDPSNIGLG SWVDTLLSEL DQTVSLPYDL SSDLPDLPTD PNRQLGMVTT VEEDSGIRLV  120
HTLITCADSV QRGDLAFAGS LIESMQALLA HVNTSCGIGK VAGYFIDALR RRISSPQSAA  180
FPTSPYENDV LYHHYYEACP YLKFAHFTAN QAILEAFNGH DCVHVIDFNL MQGLQWPALI  240
QALALRPGGP PSLRLTGVGP PSPDERDTLR EIGARLAELA HSVNVRFTFR GVAAWRLEDV  300
KPWMLQVSPK EAVAVNSIMQ LHRVLGSGID TVLGWIRGLN PKIVAVVEQE ANHNGESFLE  360
RFTEALHYYS TVFDSLEACS VEPDKGLAEM YLQREICNVV CCEGPARLER HEPLVKWRER  420
LGRAGFRPLH LGSNAYKQAS MLLTLFSAEG YCVEENQGCL TLGWHSRPLI AASAWQAAPL  480
REGETVRFQR *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	5e-66	112	475	12	378	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	Vradi08g15350.1

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	AP015041	0.0	AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014514338.1	0.0	DELLA protein GAI
Swissprot	Q9LQT8	1e-156	GAI_ARATH; DELLA protein GAI
TrEMBL	A0A1S3V7L3	0.0	A0A1S3V7L3_VIGRR; DELLA protein GAI
STRING	XP_007144131.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF803	34	121

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14920.1	1e-156	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] 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]