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

Cla012302

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

GRAS

Protein Properties

Length: 535aa MW: 58223.9 Da PI: 5.3748

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla012302	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	410.7	1.4e-125	154	518	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdg..dpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshlta 98 lv+ L++cA+ ++ gd+ la +l+ +++ l s + ++a yf AL +r++ p +t+ ++ e + ++ ++e++P+lkf+h+ta Cla012302 154 LVHMLVTCADSIHRGDFPLAGSLIVEMQSLLSGINseCGIGKVAGYFIDALTRRVFT---------PHDTTTATTGYEDVLLYHHYYEACPYLKFAHFTA 244 689***********************99554331369*************9.........66666667799999**************** PP GRAS 99 NqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp 198 NqaIlea++g+++vH+iDf++++GlQWpaL+qaLa Rp+gpp lR+Tg+g+p+++ +++l+e+g rLa++A++++v+f f+ ++a rled+++++L+v+p Cla012302 245 NQAILEAFDGHDCVHVIDFNLMHGLQWPALIQALALRPGGPPLLRLTGIGPPSPDGHDSLREIGLRLAELARSVNVRFAFRGVAAARLEDVKPWMLQVSP 344 ******************************************************************************9999********** PP GRAS 199 gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerfleal..eyysalfdsleaklpreseerikvErellgreivn 296 +E++aVn+v+qlhrll ++ s++ + vL ++sl+Pk+++vveqeadhn++ Fler++eal yys++fdslea ++ + +++l+rei+n Cla012302 345 KETVAVNSVMQLHRLLGNNPSSSA-MEMVLGWIRSLNPKIMTVVEQEADHNQTGFLERVTEALalFYYSTMFDSLEACC---MMPEKALAEMYLQREICN 440 ************77777666.9*******************************752279****9995...55566677788*** PP GRAS 297 vvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 vv+ceg++r+erhe l kWr+rl++aGF++++l+++a kqa++ll ++ +g+++ee++g+l+lgW++rpL+++SaW+ Cla012302 441 VVSCEGSARVERHEPLVKWRSRLRQAGFRALHLGSNAFKQASMLLTLFSAEGFSIEENEGCLTLGWHSRPLIAASAWQ 518 ***************************************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01129	1.8E-22	32	104	No hit	No description
Pfam	PF12041	1.1E-32	32	98	IPR021914	Transcriptional factor DELLA, N-terminal
PROSITE profile	PS50985	60.162	128	498	IPR005202	Transcription factor GRAS
Pfam	PF03514	4.7E-123	154	518	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 535 aa Download sequence Send to blast
MDPFESAASS GGSSSSSSGS SSSTVTKPQD IDGLLAGAGY KVRSSDLPHV AQRLERLESA 60 MVNSSSEISQ LASDAVHYNP SDIASWVDSI LSELNQTASL PSDLPDFPDL FSVSNQTAGN 120 VSWTDPCVAA QHQNLAQHQL TVVTAMEEDS GIKLVHMLVT CADSIHRGDF PLAGSLIVEM 180 QSLLSGINSE CGIGKVAGYF IDALTRRVFT PHDTTTATTG YEDVLLYHHY YEACPYLKFA 240 HFTANQAILE AFDGHDCVHV IDFNLMHGLQ WPALIQALAL RPGGPPLLRL TGIGPPSPDG 300 HDSLREIGLR LAELARSVNV RFAFRGVAAA RLEDVKPWML QVSPKETVAV NSVMQLHRLL 360 GNNPSSSAME MVLGWIRSLN PKIMTVVEQE ADHNQTGFLE RVTEALALFY YSTMFDSLEA 420 CCMMPEKALA EMYLQREICN VVSCEGSARV ERHEPLVKWR SRLRQAGFRA LHLGSNAFKQ 480 ASMLLTLFSA EGFSIEENEG CLTLGWHSRP LIAASAWQAA PPSDSNANHH FGGIV

Sequence ? help Back to Top

Protein Sequence Length: 535 aa Download sequence Send to blast

MDPFESAASS GGSSSSSSGS SSSTVTKPQD IDGLLAGAGY KVRSSDLPHV AQRLERLESA  60
MVNSSSEISQ LASDAVHYNP SDIASWVDSI LSELNQTASL PSDLPDFPDL FSVSNQTAGN  120
VSWTDPCVAA QHQNLAQHQL TVVTAMEEDS GIKLVHMLVT CADSIHRGDF PLAGSLIVEM  180
QSLLSGINSE CGIGKVAGYF IDALTRRVFT PHDTTTATTG YEDVLLYHHY YEACPYLKFA  240
HFTANQAILE AFDGHDCVHV IDFNLMHGLQ WPALIQALAL RPGGPPLLRL TGIGPPSPDG  300
HDSLREIGLR LAELARSVNV RFAFRGVAAA RLEDVKPWML QVSPKETVAV NSVMQLHRLL  360
GNNPSSSAME MVLGWIRSLN PKIMTVVEQE ADHNQTGFLE RVTEALALFY YSTMFDSLEA  420
CCMMPEKALA EMYLQREICN VVSCEGSARV ERHEPLVKWR SRLRQAGFRA LHLGSNAFKQ  480
ASMLLTLFSA EGFSIEENEG CLTLGWHSRP LIAASAWQAA PPSDSNANHH FGGIV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	3e-56	147	517	12	378	Protein SCARECROW
5b3h_A	3e-56	147	517	11	377	Protein SCARECROW
5b3h_D	3e-56	147	517	11	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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681810	0.0	LN681810.1 Cucumis melo genomic scaffold, anchoredscaffold00077.
GenBank	LN713256	0.0	LN713256.1 Cucumis melo genomic chromosome, chr_2.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004146291.2	0.0	PREDICTED: DELLA protein GAI
Swissprot	Q9LQT8	1e-158	GAI_ARATH; DELLA protein GAI
TrEMBL	A0A0A0LU00	0.0	A0A0A0LU00_CUCSA; Uncharacterized protein
STRING	XP_004161044.1	0.0	(Cucumis sativus)

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-134	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]