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

WALNUT_00008317-RA

Organism

Juglans regia

Taxonomic ID

51240

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans

Family

GRAS

Protein Properties

Length: 549aa MW: 59758.8 Da PI: 5.1976

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
WALNUT_00008317-RA	genome	JHU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	418.1	7.5e-128	151	519	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlsel..aspdgdpmqRlaayfteALaarlar.svselykalppsetseknsseelaalklfsevs 88 lv++Ll+cAe v+ gdl+ a +l++ ++ l + ++ + ++a yf AL++r++ ++ + + + e+ ++ f+e++ WALNUT_00008317-RA 151 LVHVLLTCAESVQRGDLAFAGSLIEDMQSLltRVNTSCGIGKVAGYFIDALSRRIFTpQGVGFGGGVGLDP-----AYENEVLYHHFYEAC 236 689************************954444446899***********933333333333333.....4556667889* PP GRAS 89 PilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefn 179 P+lkf+h+taNqaIlea++g+++vH++Df++++GlQWpaL+qaLa Rp+gpp lR+Tg+g+p+++ +++l+e+g rL+++A++++v+f f+ WALNUT_00008317-RA 237 PYLKFAHFTANQAILEAFDGHDCVHVVDFNLMHGLQWPALIQALALRPGGPPLLRLTGIGPPSPDGRDSLREVGLRLSELARSVNVRFAFR 327 *************************************************************************************** PP GRAS 180 vlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfds 270 ++a+rled+++++L+v+p+Ea+aVn+++qlhrll ++ s +s+++ vL +++l+Pk+++v+eqea+hn++ Fl+rf++al+yys++fds WALNUT_00008317-RA 328 GVAASRLEDVKPWMLQVNPKEAVAVNSIMQLHRLLGSEPSRNSPIEMVLGWIRNLNPKIMTVIEQEANHNQPGFLDRFTDALYYYSTMFDS 418 ***************************************************************************************** PP GRAS 271 leaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlg 361 lea + + ++ + + +++rei+nvv+ceg++r+erhe l+kWr rl++aGF+p++l+++a kqa++ll ++ +gy vee++g+l+lg WALNUT_00008317-RA 419 LEAC---TLQPEKALAEIYIQREICNVVCCEGSARVERHEPLAKWRGRLGQAGFRPLHLGSNAFKQASMLLTLFSAEGYCVEEKEGCLTLG 506 988...467777888888********************************************************************* PP GRAS 362 WkdrpLvsvSaWr 374 W++rpL+++SaW+ WALNUT_00008317-RA 507 WHSRPLIAASAWE 519 **********5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	2.5E-31	28	94	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	1.6E-20	28	100	No hit	No description
PROSITE profile	PS50985	62.976	125	499	IPR005202	Transcription factor GRAS
Pfam	PF03514	2.6E-125	151	519	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 549 aa Download sequence Send to blast
MSLYSSGTSA ASSAGSSVSS TTKPSEIDGL LAGAGYRVRS SDLRHVAQRL ERLDAAMVNS 60 PAEVSQLASD AVHYNPSDIA SWVDSLLSEL NQTASLPSDL PELPELMVGP GLNQTVLAED 120 AWTDHDAPQH QQLNNQFPVM TAMEEDSGIR LVHVLLTCAE SVQRGDLAFA GSLIEDMQSL 180 LTRVNTSCGI GKVAGYFIDA LSRRIFTPQG VGFGGGVGLD PAYENEVLYH HFYEACPYLK 240 FAHFTANQAI LEAFDGHDCV HVVDFNLMHG LQWPALIQAL ALRPGGPPLL RLTGIGPPSP 300 DGRDSLREVG LRLSELARSV NVRFAFRGVA ASRLEDVKPW MLQVNPKEAV AVNSIMQLHR 360 LLGSEPSRNS PIEMVLGWIR NLNPKIMTVI EQEANHNQPG FLDRFTDALY YYSTMFDSLE 420 ACTLQPEKAL AEIYIQREIC NVVCCEGSAR VERHEPLAKW RGRLGQAGFR PLHLGSNAFK 480 QASMLLTLFS AEGYCVEEKE GCLTLGWHSR PLIAASAWEA PLALPDANSP AAAPGIFVNP 540 HSNPPINSL

Sequence ? help Back to Top

Protein Sequence Length: 549 aa Download sequence Send to blast

MSLYSSGTSA ASSAGSSVSS TTKPSEIDGL LAGAGYRVRS SDLRHVAQRL ERLDAAMVNS  60
PAEVSQLASD AVHYNPSDIA SWVDSLLSEL NQTASLPSDL PELPELMVGP GLNQTVLAED  120
AWTDHDAPQH QQLNNQFPVM TAMEEDSGIR LVHVLLTCAE SVQRGDLAFA GSLIEDMQSL  180
LTRVNTSCGI GKVAGYFIDA LSRRIFTPQG VGFGGGVGLD PAYENEVLYH HFYEACPYLK  240
FAHFTANQAI LEAFDGHDCV HVVDFNLMHG LQWPALIQAL ALRPGGPPLL RLTGIGPPSP  300
DGRDSLREVG LRLSELARSV NVRFAFRGVA ASRLEDVKPW MLQVNPKEAV AVNSIMQLHR  360
LLGSEPSRNS PIEMVLGWIR NLNPKIMTVI EQEANHNQPG FLDRFTDALY YYSTMFDSLE  420
ACTLQPEKAL AEIYIQREIC NVVCCEGSAR VERHEPLAKW RGRLGQAGFR PLHLGSNAFK  480
QASMLLTLFS AEGYCVEEKE GCLTLGWHSR PLIAASAWEA PLALPDANSP AAAPGIFVNP  540
HSNPPINSL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	2e-59	127	518	1	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}.

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_018841073.1	0.0	PREDICTED: DELLA protein SLN1-like
Swissprot	Q9LQT8	1e-161	GAI_ARATH; DELLA protein GAI
TrEMBL	A0A2I4GAY3	0.0	A0A2I4GAY3_JUGRE; DELLA protein SLN1-like
STRING	XP_008343960.1	0.0	(Malus domestica)

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-142	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]