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

KFK26113.1

Organism

Arabis alpina

Taxonomic ID

50452

Taxonomic Lineage

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

Family

GRAS

Protein Properties

Length: 528aa MW: 58224.7 Da PI: 5.1368

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KFK26113.1	genome	MPIPBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	438.3	5.4e-134	159	519	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsets.eknsseelaalklfsevsPilkfshlta 98 lv++Ll+cAeav++++l+la+al++++ la ++ +m+++a+yf+eALa+r++r l+ps++ +++ s++l++ f+e++P+lkf+h+ta KFK26113.1 159 LVHTLLACAEAVQKDNLTLAEALVKQIGFLALSQIGAMKKVATYFAEALARRIYR--------LRPSRSLiDHSLSDTLQM--HFYETCPYLKFAHFTA 247 689**************************************************........544444303334444433..4*********** PP GRAS 99 NqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvk 197 NqaI+ea++g++rvH+iDf++sqGlQWpaL+qaLa Rp+gpp +R+Tg+g+p++++ + l+e+g +La++A++++v+fe++ +va++l+dl+ ++L+++ KFK26113.1 248 NQAIYEAFQGKKRVHVIDFSMSQGLQWPALMQALALRPGGPPIFRLTGIGPPSPDNFDYLHEVGCKLAHLADAINVEFEYRGFVANTLADLDASMLELR 346 *********************************************************************************************** PP GRAS 198 p..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgrei 294 p E++aVn+v++lh+ll +++++e+ vL +v++++P++++vveqe++hns+ Fl+rf+e+l+yys+lfdsle s++++++++++lg++i KFK26113.1 347 PseIESVAVNSVFELHKLLGRPGAIEK----VLGVVNQIQPEIFTVVEQESNHNSPVFLDRFTESLHYYSTLFDSLEGA---PSSQDKVMSEVYLGKQI 438 98889****************99....*****************************************999...79999******** PP GRAS 295 vnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374 +nvvac g +r+erhetl++Wr+r+++aGF+++++++ka k+a++ll+ ++ ++gyrvee++g+l+lgW++rpLv++SaW+ KFK26113.1 439 CNVVACDGPDRVERHETLSQWRNRFGSAGFSAAHMGSKAFKDASMLLALFNgGEGYRVEESDGCLTLGWHTRPLVAASAWK 519 ******************************************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12041	6.2E-31	22	89	IPR021914	Transcriptional factor DELLA, N-terminal
SMART	SM01129	2.9E-36	22	95	No hit	No description
PROSITE profile	PS50985	63.755	133	498	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.9E-131	159	519	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006808	Biological Process	regulation of nitrogen utilization
GO:0009723	Biological Process	response to ethylene
GO:0009737	Biological Process	response to abscisic acid
GO:0009863	Biological Process	salicylic acid mediated signaling pathway
GO:0009867	Biological Process	jasmonic acid mediated signaling pathway
GO:0009938	Biological Process	negative regulation of gibberellic acid mediated signaling pathway
GO:0010187	Biological Process	negative regulation of seed germination
GO:0010218	Biological Process	response to far red light
GO:0010233	Biological Process	phloem transport
GO:0042538	Biological Process	hyperosmotic salinity response
GO:2000033	Biological Process	regulation of seed dormancy process
GO:2000377	Biological Process	regulation of reactive oxygen species metabolic process
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 528 aa Download sequence Send to blast
MKRDQYHLGK SMKEEDDGNG MDELLAVLGY KVKSSEMADV AQRLEKLDVM MSNVGEDDLS 60 QLGTDSVHYN PSELYTWLDS MLSDLNPNAD SDLKAIPGDA VLNQFSVDSS SSSSNQVGDT 120 NTTNKRFKSS SSDSMAVSTP AESTRAVVLV DSQENGVRLV HTLLACAEAV QKDNLTLAEA 180 LVKQIGFLAL SQIGAMKKVA TYFAEALARR IYRLRPSRSL IDHSLSDTLQ MHFYETCPYL 240 KFAHFTANQA IYEAFQGKKR VHVIDFSMSQ GLQWPALMQA LALRPGGPPI FRLTGIGPPS 300 PDNFDYLHEV GCKLAHLADA INVEFEYRGF VANTLADLDA SMLELRPSEI ESVAVNSVFE 360 LHKLLGRPGA IEKVLGVVNQ IQPEIFTVVE QESNHNSPVF LDRFTESLHY YSTLFDSLEG 420 APSSQDKVMS EVYLGKQICN VVACDGPDRV ERHETLSQWR NRFGSAGFSA AHMGSKAFKD 480 ASMLLALFNG GEGYRVEESD GCLTLGWHTR PLVAASAWKL STNQMISH

Sequence ? help Back to Top

Protein Sequence Length: 528 aa Download sequence Send to blast

MKRDQYHLGK SMKEEDDGNG MDELLAVLGY KVKSSEMADV AQRLEKLDVM MSNVGEDDLS  60
QLGTDSVHYN PSELYTWLDS MLSDLNPNAD SDLKAIPGDA VLNQFSVDSS SSSSNQVGDT  120
NTTNKRFKSS SSDSMAVSTP AESTRAVVLV DSQENGVRLV HTLLACAEAV QKDNLTLAEA  180
LVKQIGFLAL SQIGAMKKVA TYFAEALARR IYRLRPSRSL IDHSLSDTLQ MHFYETCPYL  240
KFAHFTANQA IYEAFQGKKR VHVIDFSMSQ GLQWPALMQA LALRPGGPPI FRLTGIGPPS  300
PDNFDYLHEV GCKLAHLADA INVEFEYRGF VANTLADLDA SMLELRPSEI ESVAVNSVFE  360
LHKLLGRPGA IEKVLGVVNQ IQPEIFTVVE QESNHNSPVF LDRFTESLHY YSTLFDSLEG  420
APSSQDKVMS EVYLGKQICN VVACDGPDRV ERHETLSQWR NRFGSAGFSA AHMGSKAFKD  480
ASMLLALFNG GEGYRVEESD GCLTLGWHTR PLVAASAWKL STNQMISH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	2e-65	154	518	14	378	Protein SCARECROW
5b3h_A	2e-65	154	518	13	377	Protein SCARECROW
5b3h_D	2e-65	154	518	13	377	Protein SCARECROW
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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	KFK26113.1

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	AC006917	0.0	AC006917.6 Genomic sequence for Arabidopsis thaliana BAC F10B6 from chromosome I, complete sequence.
GenBank	AY058194	0.0	AY058194.1 Arabidopsis thaliana At1g14920/F10B6_15 mRNA, complete cds.
GenBank	AY142002	0.0	AY142002.1 Arabidopsis thaliana At1g14920/F10B6_15 mRNA, complete cds.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBank	GQ177367	0.0	GQ177367.1 Arabidopsis thaliana ecotype Ag-0 GAI gene, complete sequence.
GenBank	GQ177375	0.0	GQ177375.1 Arabidopsis thaliana ecotype Br-0 GAI gene, complete sequence.
GenBank	GQ177378	0.0	GQ177378.1 Arabidopsis thaliana ecotype Ei-2 GAI gene, complete sequence.
GenBank	GQ177385	0.0	GQ177385.1 Arabidopsis thaliana ecotype Mt-0 GAI gene, complete sequence.
GenBank	GQ177389	0.0	GQ177389.1 Arabidopsis thaliana ecotype Wt-5 GAI gene, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006416958.1	0.0	DELLA protein GAI
Swissprot	Q9LQT8	0.0	GAI_ARATH; DELLA protein GAI
TrEMBL	A0A087G8B1	0.0	A0A087G8B1_ARAAL; Uncharacterized protein
STRING	A0A087G8B1	0.0	(Arabis alpina)

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
AT1G14920.1	0.0	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]