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

OGLUM01G28380.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

GRAS

Protein Properties

Length: 493aa MW: 51830.1 Da PI: 4.9652

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM01G28380.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	419.9	2.2e-128	84	447	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlsel..aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilk 92 lv+lL++cA a+++gd++la+a La + a ++++ + R+a +ft AL++rl+ + ++p +t +e+++ ++ f+e++P+lk OGLUM01G28380.1 84 LVHLLMSCAGAIEAGDHALASAQLADSHAAlaAVSAASGIGRVAVHFTTALSRRLFP------SPVAPPTT----DAEHAFLYHHFYEACPYLK 167 68*********************9998875667779**************9......44444444....4899999******** PP GRAS 93 fshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrl 186 f+h+taNqaIlea++g+++vH+iDf+++qGlQWpaL+qaLa Rp+gpp lRiTg+g+p+++ ++el+ +g rLa++A++++v+f+f+ ++a++l OGLUM01G28380.1 168 FAHFTANQAILEAFHGCDHVHVIDFSLMQGLQWPALIQALALRPGGPPFLRITGIGPPSPTGRDELRDVGLRLADLARSVRVRFSFRGVAANSL 261 ****************************************************************************************** PP GRAS 187 edleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklprese 280 +++++++L++ pgEa+a n+vlqlhrll ++++++ +++vL++v s++Pk+++v+eqeadhn++ Fl+rf+eal yysa+fdsl+a ++ OGLUM01G28380.1 262 DEVRPWMLQIAPGEAVAFNSVLQLHRLLGDPADQAP-INAVLDCVASVRPKIFTVIEQEADHNKTGFLDRFTEALFYYSAVFDSLDAA-SASGG 353 ************************99988887.********************************************998.44558 PP GRAS 281 erikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 + + + +++l+rei+++v+ ega+rrerhe l++Wr+rl++aG+++vpl+++a qa++l+ ++++g++vee +g+l+lgW++rpL+s+SaW+ OGLUM01G28380.1 354 AGNAMAEAYLQREICDIVCGEGAARRERHEPLSRWRDRLTRAGLSAVPLGSNALRQARMLVGLFSGEGHSVEEADGCLTLGWHGRPLFSASAWE 447 888888889**********************************************************************************5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	61.519	58	427	IPR005202	Transcription factor GRAS
Pfam	PF03514	7.8E-126	84	447	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

Sequence ? help Back to Top
Protein Sequence Length: 493 aa Download sequence Send to blast
MDTFPFQWPM DPAASSGLDA GFLPPPAAVA PDDGVGYYDP PAGADVDAAA LPELAAAFPP 60 CAPDAAAAVL AMRREEEEVA GIRLVHLLMS CAGAIEAGDH ALASAQLADS HAALAAVSAA 120 SGIGRVAVHF TTALSRRLFP SPVAPPTTDA EHAFLYHHFY EACPYLKFAH FTANQAILEA 180 FHGCDHVHVI DFSLMQGLQW PALIQALALR PGGPPFLRIT GIGPPSPTGR DELRDVGLRL 240 ADLARSVRVR FSFRGVAANS LDEVRPWMLQ IAPGEAVAFN SVLQLHRLLG DPADQAPINA 300 VLDCVASVRP KIFTVIEQEA DHNKTGFLDR FTEALFYYSA VFDSLDAASA SGGAGNAMAE 360 AYLQREICDI VCGEGAARRE RHEPLSRWRD RLTRAGLSAV PLGSNALRQA RMLVGLFSGE 420 GHSVEEADGC LTLGWHGRPL FSASAWEAAG DGGGDNNNNS NSNVSGSSGS DSNNSGSSNG 480 KSSGARDGSS VCL

Sequence ? help Back to Top

Protein Sequence Length: 493 aa Download sequence Send to blast

MDTFPFQWPM DPAASSGLDA GFLPPPAAVA PDDGVGYYDP PAGADVDAAA LPELAAAFPP  60
CAPDAAAAVL AMRREEEEVA GIRLVHLLMS CAGAIEAGDH ALASAQLADS HAALAAVSAA  120
SGIGRVAVHF TTALSRRLFP SPVAPPTTDA EHAFLYHHFY EACPYLKFAH FTANQAILEA  180
FHGCDHVHVI DFSLMQGLQW PALIQALALR PGGPPFLRIT GIGPPSPTGR DELRDVGLRL  240
ADLARSVRVR FSFRGVAANS LDEVRPWMLQ IAPGEAVAFN SVLQLHRLLG DPADQAPINA  300
VLDCVASVRP KIFTVIEQEA DHNKTGFLDR FTEALFYYSA VFDSLDAASA SGGAGNAMAE  360
AYLQREICDI VCGEGAARRE RHEPLSRWRD RLTRAGLSAV PLGSNALRQA RMLVGLFSGE  420
GHSVEEADGC LTLGWHGRPL FSASAWEAAG DGGGDNNNNS NSNVSGSSGS DSNNSGSSNG  480
KSSGARDGSS VCL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	9e-61	84	446	4	374	GRAS family transcription factor containing protein, expressed
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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CP012609	0.0	CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015624056.1	0.0	DELLA protein SLN1
Swissprot	Q9LQT8	1e-129	GAI_ARATH; DELLA protein GAI
TrEMBL	A0A0D9YCE4	0.0	A0A0D9YCE4_9ORYZ; Uncharacterized protein
STRING	OGLUM01G28380.1	0.0	(Oryza glumipatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP998	38	138

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14920.1	1e-115	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]