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

RrC3811_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: 221aa MW: 25086.5 Da PI: 4.5562

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3811_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	205.6	2.9e-63	4	221	156	374
GRAS 156 eeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFl 254 +l +t++rL +fA+ l+++fef v + +++l+ +++rv+p+E+laVn++lql++ll+e+ ++ + + L+l +sl+P+vv++ e ++++n+ F+ RrC3811_p1 4 PSLIATENRLGDFAKVLDLDFEFVS-VLTPIHSLDGSSFRVDPDEVLAVNFMLQLYKLLEETPTVVD---TALRLARSLNPRVVTLGEYDVSLNRVCFV 98 568899*****************.799**************************88888888...************************* PP GRAS 255 erflealeyysalfdsleaklpreseerikvErellgreivnvvacegae.rrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrv 351 +r+ +al++ysa+f+sle +l+r+seer vEr+l+gr i+ +v e + +rer+e +e+Wr +e+aGF++v+ls++a++qa ll +++ s+ y++ RrC3811_p1 99 NRVKNALQFYSAVFESLEPNLGRDSEERGRVERVLFGRTISGLVGPEITGnQRERMEDKEQWRVLMENAGFESVKLSNYAVSQAMILLWNYNySNLYSI 197 *****************************************99775589***********************************99* PP GRAS 352 eeesgslv.lgWkdrpLvsvSaWr 374 e++ +v l W+d pL++vS+Wr RrC3811_p1 198 VESKPGFVsLAWNDLPLLTVSSWR 221 99999************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	30.433	1	199	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.0E-60	4	221	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 221 aa Download sequence Send to blast
SPEPSLIATE NRLGDFAKVL DLDFEFVSVL TPIHSLDGSS FRVDPDEVLA VNFMLQLYKL 60 LEETPTVVDT ALRLARSLNP RVVTLGEYDV SLNRVCFVNR VKNALQFYSA VFESLEPNLG 120 RDSEERGRVE RVLFGRTISG LVGPEITGNQ RERMEDKEQW RVLMENAGFE SVKLSNYAVS 180 QAMILLWNYN YSNLYSIVES KPGFVSLAWN DLPLLTVSSW R

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	4e-81	2	221	156	375	GRAS family transcription factor containing protein, expressed
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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_018441267.1	1e-154	PREDICTED: scarecrow-like protein 4
Swissprot	Q9FL03	1e-136	SCL4_ARATH; Scarecrow-like protein 4
TrEMBL	A0A3N6S182	1e-134	A0A3N6S182_BRACR; Uncharacterized protein
STRING	Bo7g064520.1	1e-135	(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-138	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]