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

RrC25963_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

GRAS

Protein Properties

Length: 401aa MW: 44279.4 Da PI: 6.8347

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC25963_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	353.8	2.7e-108	38	396	2	374
GRAS 2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlar.svselykalppsetseknsseelaalklfsevsPilkfshlta 98 +lLl+cAe v++++l++a+ lL+++se++sp g++ +R++ayf +AL+ar+++ s+ ++ l+ ++ ++ + +aal++f+ ++P++kfsh+ta RrC25963_p1 38 LSLLLQCAEYVATNHLHEASILLSEISETCSPFGSSPERVVAYFSQALQARVVSsYLSRACSHLSNNPPI-HHPHKIFAALQTFNSLTPLIKFSHFTA 134 689************************************************95556666666555554.5688899999************* PP GRAS 99 NqaIleavege.ervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLr 195 NqaI +a++g+ + vHiiD+d++qGlQWp L++ LasRp++ s+RiTg+g+ s++ l +tg+rLa+fA++l +pfef++ v+ ++ + ++++L RrC25963_p1 135 NQAIFQALNGDeDSVHIIDLDVMQGLQWPGLFHILASRPRKLRSIRITGFGP----SSDILASTGRRLADFAASLSLPFEFHP-VVGKIGKTDPSRLG 227 *****9989***********************************....9**********************.7999****** PP GRAS 196 vkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerflealeyysalfdsleaklpreseerikvErell 290 ++pgEa+ V+++ hrl+d ++s + ++++++l+P +v++veqe+++ +++ Fl rf+eal+yysalfd+l +l++es er vE+ +l RrC25963_p1 228 MRPGEAVLVHWMQ--HRLYDVTGSDID----AVEVIRRLRPSLVTMVEQELSCddgGGGCFLGRFVEALHYYSALFDALGDGLGEESGERFAVEQIVL 319 ********9..99999999....9**************6662245569********************************** PP GRAS 291 greivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 g ei+nvv + + +++Wre l+++GF+pv+l+ + a+qa lll + +++gy++ ee+g+l lgWkd +L+++SaW+ RrC25963_p1 320 GTEIKNVVGGKRK-------GMMRWREELGRVGFRPVSLRGNPATQAGLLLGMLPWNGYTLVEENGTLRLGWKDLSLLTASAWQ 396 ****86555.......5999*********************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	51.465	11	376	IPR005202	Transcription factor GRAS
Pfam	PF03514	9.2E-106	38	396	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048366	Biological Process	leaf development
GO:0090610	Biological Process	bundle sheath cell fate specification
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 401 aa Download sequence Send to blast
MASKRVHRDH TDLSTVKRHK DLDFPEDTTT TPDAINLLSL LLQCAEYVAT NHLHEASILL 60 SEISETCSPF GSSPERVVAY FSQALQARVV SSYLSRACSH LSNNPPIHHP HKIFAALQTF 120 NSLTPLIKFS HFTANQAIFQ ALNGDEDSVH IIDLDVMQGL QWPGLFHILA SRPRKLRSIR 180 ITGFGPSSDI LASTGRRLAD FAASLSLPFE FHPVVGKIGK TDPSRLGMRP GEAVLVHWMQ 240 HRLYDVTGSD IDAVEVIRRL RPSLVTMVEQ ELSCDDGGGG CFLGRFVEAL HYYSALFDAL 300 GDGLGEESGE RFAVEQIVLG TEIKNVVGGK RKGMMRWREE LGRVGFRPVS LRGNPATQAG 360 LLLGMLPWNG YTLVEENGTL RLGWKDLSLL TASAWQSQPS D

Sequence ? help Back to Top

Protein Sequence Length: 401 aa Download sequence Send to blast

MASKRVHRDH TDLSTVKRHK DLDFPEDTTT TPDAINLLSL LLQCAEYVAT NHLHEASILL  60
SEISETCSPF GSSPERVVAY FSQALQARVV SSYLSRACSH LSNNPPIHHP HKIFAALQTF  120
NSLTPLIKFS HFTANQAIFQ ALNGDEDSVH IIDLDVMQGL QWPGLFHILA SRPRKLRSIR  180
ITGFGPSSDI LASTGRRLAD FAASLSLPFE FHPVVGKIGK TDPSRLGMRP GEAVLVHWMQ  240
HRLYDVTGSD IDAVEVIRRL RPSLVTMVEQ ELSCDDGGGG CFLGRFVEAL HYYSALFDAL  300
GDGLGEESGE RFAVEQIVLG TEIKNVVGGK RKGMMRWREE LGRVGFRPVS LRGNPATQAG  360
LLLGMLPWNG YTLVEENGTL RLGWKDLSLL TASAWQSQPS D

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_A	1e-137	43	395	24	377	Protein SCARECROW
5b3h_D	1e-137	43	395	24	377	Protein SCARECROW
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in plant development. {ECO:0000250}.

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_018477714.1	0.0	PREDICTED: scarecrow-like protein 23
Swissprot	Q9FHZ1	0.0	SCL23_ARATH; Scarecrow-like protein 23
TrEMBL	A0A397ZNW7	0.0	A0A397ZNW7_BRACM; Uncharacterized protein
STRING	Bo4g143710.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12512	26	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G41920.1	0.0	GRAS family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Yoon EK, et al. Conservation and Diversification of the SHR-SCR-SCL23 Regulatory Network in the Development of the Functional Endodermis in Arabidopsis Shoots. Mol Plant, 2016. 9(8): p. 1197-1209 [PMID:27353361]