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

Rsa1.0_30641.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 232aa MW: 25185.1 Da PI: 4.6741

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_30641.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	186.5	1.8e-57	39	232	3	200
GRAS 3 elLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevs 88 +++ +c ++s+ e a ++L r++e +s++gdpm+R+ +yf eAL++rl+ ++++ +++++++++ ++++k++++++ Rsa1.0_30641.1_g00001.1 39 KAIHDCSLILDSEPPEDAAKALVRIRESVSEHGDPMERVGFYFSEALRSRLSP------DSVSNDSSRSSTVENLVMSYKTLNDAC 118 567788899999999************************************......788888888889*********** PP GRAS 89 PilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegpp.slRiTgvgspesg..skeeleetgerLakfAee 171 P++kf+hltaNqaIlea+e+++++Hi+Df+i qG+QWpaLlqaLa+R++g+p ++Ri g+ +p+ g + +l +tg+rL +fA+ Rsa1.0_30641.1_g00001.1 119 PYFKFAHLTANQAILEATEHSSKIHIVDFGIVQGIQWPALLQALATRSSGKPaRVRISGIPAPSLGesPEPSLIATGNRLGDFAKV 204 ********************************************77666******99998999*********** PP GRAS 172 lgvpfefnvlvakrledleleeLrvkpgE 200 l+++fef v + +++l+ +++rv+p+E Rsa1.0_30641.1_g00001.1 205 LDLDFEFVS-VLTPIHSLDGSSFRVDPDE 232 *****.799***********998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	37.362	11	232	IPR005202	Transcription factor GRAS
Pfam	PF03514	6.3E-55	39	232	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 232 aa Download sequence Send to blast
PPLPSSSPPR QKTKHPEPND SEENGGGSQD FDLEPPLLKA IHDCSLILDS EPPEDAAKAL 60 VRIRESVSEH GDPMERVGFY FSEALRSRLS PDSVSNDSSR SSTVENLVMS YKTLNDACPY 120 FKFAHLTANQ AILEATEHSS KIHIVDFGIV QGIQWPALLQ ALATRSSGKP ARVRISGIPA 180 PSLGESPEPS LIATGNRLGD FAKVLDLDFE FVSVLTPIHS LDGSSFRVDP DE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	3e-69	36	232	3	201	GRAS family transcription factor containing protein, expressed
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in plant development. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_30641.1_g00001.1

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_018441267.1	1e-150	PREDICTED: scarecrow-like protein 4
Swissprot	Q9FL03	1e-102	SCL4_ARATH; Scarecrow-like protein 4
TrEMBL	A0A0D3D8D5	1e-126	A0A0D3D8D5_BRAOL; Uncharacterized protein
STRING	Bo7g064520.1	1e-127	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4786	27	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66770.1	1e-102	GRAS family protein

Publications ? help Back to Top
Wortman JR, et al. Annotation of the Arabidopsis genome. Plant Physiol., 2003. 132(2): p. 461-8 [PMID:12805579] 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]