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

Lus10017758

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

GRAS

Protein Properties

Length: 556aa MW: 60257.4 Da PI: 5.3

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10017758	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	388.7	6.4e-119	161	532	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlsel..aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshl 96 lv+ L++cAe ++ g+l+la +l++ ++ l + ++g + ++a yf AL +r++ + +++ + + e+ ++ f+e++P+lkf+h+ Lus10017758 161 LVHMLMTCAEYIQRGELALAGSLIQDMQGLltRVNTGCGIGKVAGYFIDALTRRVFA--APVTATVG-----PGSAYETEILYHHFYEACPYLKFAHF 251 689***********************9977888899**************9..33333332.....3335566677899********* PP GRAS 97 taNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetger.LakfAeelgvpfefnvlvakrledlelee 193 taNqaIlea++g+++vH++Df+++ G Q paL+qaLa Rp+gpp lR+Tg+g+p+++ +++l+e+g+ a+ A +l v+ f+ ++a+rled+++++ Lus10017758 252 TANQAILEAFDGHDCVHVVDFNLTPGPQRPALIQALALRPGGPPLLRLTGIGPPSPDGRDQLREIGRHgPAEWAGALTVRSAFRGVAASRLEDVKPWM 349 *************************************************************9873699********************** PP GRAS 194 LrvkpgEalaVnlvlqlhrlldesvsles....erdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvEr 287 L+v+p+Ea+aVn+++qlh+ll+++ s++ +++ vL ++sl+Pk+++vveqea+hn++ Fl+rf+e+l+yys++fdsl+a + + +++ v + Lus10017758 350 LQVNPKEAVAVNSIMQLHKLLASDPSSTTrntaPIEMVLGWIRSLNPKIMTVVEQEANHNQPAFLDRFTESLYYYSTMFDSLDAC--SIQAAEKAVAE 445 *****************9887776655668899*****************************************888..45677788888 PP GRAS 288 ellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 +++++ei+nvv+ceg++r erhe l+kWrerl+eaGFkp++l+++a kqa++ll ++ +gy+vee +g+l+lgW++rpL+++SaW+ Lus10017758 446 MYIQKEICNVVSCEGSARLERHEPLSKWRERLNEAGFKPLHLGSNAFKQASMLLTLFSAEGYSVEETDGCLTLGWHSRPLIAASAWQ 532 99**********************************************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01129	3.5E-18	40	113	No hit	No description
Pfam	PF12041	1.4E-30	40	107	IPR021914	Transcriptional factor DELLA, N-terminal
PROSITE profile	PS50985	56.548	135	512	IPR005202	Transcription factor GRAS
Pfam	PF03514	2.2E-116	161	532	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 556 aa Download sequence Send to blast
MVPYETTAAA APPPLNPISN HHPAVSSSSS SAISKPPEID GLLAGAGYKV RSSDLRHVAH 60 RLERLETAML NSPSQQLSLL ASDAVLYNPS DLSSWVDTLL SELNQSQSFP SLPSDLSDLI 120 SNPTAIDTTW IDQIQSPSQQ QQPAQLTVVT GVVEEDSGIR LVHMLMTCAE YIQRGELALA 180 GSLIQDMQGL LTRVNTGCGI GKVAGYFIDA LTRRVFAAPV TATVGPGSAY ETEILYHHFY 240 EACPYLKFAH FTANQAILEA FDGHDCVHVV DFNLTPGPQR PALIQALALR PGGPPLLRLT 300 GIGPPSPDGR DQLREIGRHG PAEWAGALTV RSAFRGVAAS RLEDVKPWML QVNPKEAVAV 360 NSIMQLHKLL ASDPSSTTRN TAPIEMVLGW IRSLNPKIMT VVEQEANHNQ PAFLDRFTES 420 LYYYSTMFDS LDACSIQAAE KAVAEMYIQK EICNVVSCEG SARLERHEPL SKWRERLNEA 480 GFKPLHLGSN AFKQASMLLT LFSAEGYSVE ETDGCLTLGW HSRPLIAASA WQALPEIPVP 540 DIAVVNERNG GAGLL*

Sequence ? help Back to Top

Protein Sequence Length: 556 aa Download sequence Send to blast

MVPYETTAAA APPPLNPISN HHPAVSSSSS SAISKPPEID GLLAGAGYKV RSSDLRHVAH  60
RLERLETAML NSPSQQLSLL ASDAVLYNPS DLSSWVDTLL SELNQSQSFP SLPSDLSDLI  120
SNPTAIDTTW IDQIQSPSQQ QQPAQLTVVT GVVEEDSGIR LVHMLMTCAE YIQRGELALA  180
GSLIQDMQGL LTRVNTGCGI GKVAGYFIDA LTRRVFAAPV TATVGPGSAY ETEILYHHFY  240
EACPYLKFAH FTANQAILEA FDGHDCVHVV DFNLTPGPQR PALIQALALR PGGPPLLRLT  300
GIGPPSPDGR DQLREIGRHG PAEWAGALTV RSAFRGVAAS RLEDVKPWML QVNPKEAVAV  360
NSIMQLHKLL ASDPSSTTRN TAPIEMVLGW IRSLNPKIMT VVEQEANHNQ PAFLDRFTES  420
LYYYSTMFDS LDACSIQAAE KAVAEMYIQK EICNVVSCEG SARLERHEPL SKWRERLNEA  480
GFKPLHLGSN AFKQASMLLT LFSAEGYSVE ETDGCLTLGW HSRPLIAASA WQALPEIPVP  540
DIAVVNERNG GAGLL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	1e-54	154	531	12	378	Protein SCARECROW
5b3h_A	8e-55	154	531	11	377	Protein SCARECROW
5b3h_D	8e-55	154	531	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10017758

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_012078699.1	0.0	DELLA protein SLR1
Swissprot	Q9LQT8	1e-154	GAI_ARATH; DELLA protein GAI
TrEMBL	A0A067K7Y4	0.0	A0A067K7Y4_JATCU; GRAS35 protein
STRING	Lus10017758	0.0	(Linum usitatissimum)

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-132	GRAS family protein

Link Out ? help Back to Top
Phytozome	Lus10017758

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]