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_01556.1_g00002.1

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: 338aa MW: 38439.6 Da PI: 6.9585

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01556.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	366	5.2e-112	13	338	61	374
GRAS 61 ykalppsetseknsseelaalkl.fsevsPilkfshltaNqaIleavege...ervHiiDfdisqGlQWpaLlqaLasRp...... 136 +++ ++++++n s+ + + l +++++P+++fshltaNqaIl+a+e++ ++Hi+D+disqGlQWp+L+qaLa+R+ Rsa1.0_01556.1_g00002.1 13 KEQFLFRTKNNNNNSDLESCYYLwLNQLTPFIRFSHLTANQAILDATETNngnGALHILDLDISQGLQWPPLMQALAERSssnpss 98 445566666666666666665556**********************9888799*********************765555 PP GRAS 137 .egppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvl..vakrle..dleleeLrvkp..gEalaVnlvlqlhrlld 215 ++pslRiTg+g+ + + l++tg+rL++fA++lg++f+f++l v+++++ l+++ L+++ gE++aVn+v+ lhr+l+ Rsa1.0_01556.1_g00002.1 99 sTPAPSLRITGCGR----DVTVLNRTGDRLTRFANSLGLQFQFHTLvtVEEDFTglLLQIRLLALSAvqGETIAVNCVHFLHRFLN 180 55599*****....***********************965444443114577777666666************8 PP GRAS 216 esvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvace 301 e++ ++L+++ksl+P++v+++e+ea+h+++sFl+rf+ea+++y+a+fdslea+lp++s+er ++E++++g+ei +vva+e Rsa1.0_01556.1_g00002.1 181 EDHGDMF--GHFLSAIKSLNPRIVTMAEREANHGDPSFLTRFSEAVDHYMAIFDSLEATLPPNSRERLTLEQRWFGKEILDVVAAE 264 8776655..8************************************************************************ PP GRAS 302 gaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374 aer++rh+++e W+e++++ GF +vp++++a +qaklllr ++ s+gy+++ ++sl+lgWk+r L+svS+W+ Rsa1.0_01556.1_g00002.1 265 AAERKQRHRRFEVWEEMMKRHGFVNVPIGSFALSQAKLLLRLHYpSEGYNLQFLNDSLFLGWKNRLLFSVSSWK 338 ***********************************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	50.286	1	317	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.8E-109	13	338	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010014	Biological Process	meristem initiation
GO:0010223	Biological Process	secondary shoot formation
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 338 aa Download sequence Send to blast
MTSSTVFTSS VCKEQFLFRT KNNNNNSDLE SCYYLWLNQL TPFIRFSHLT ANQAILDATE 60 TNNGNGALHI LDLDISQGLQ WPPLMQALAE RSSSNPSSST PAPSLRITGC GRDVTVLNRT 120 GDRLTRFANS LGLQFQFHTL VTVEEDFTGL LLQIRLLALS AVQGETIAVN CVHFLHRFLN 180 EDHGDMFGHF LSAIKSLNPR IVTMAEREAN HGDPSFLTRF SEAVDHYMAI FDSLEATLPP 240 NSRERLTLEQ RWFGKEILDV VAAEAAERKQ RHRRFEVWEE MMKRHGFVNV PIGSFALSQA 300 KLLLRLHYPS EGYNLQFLND SLFLGWKNRL LFSVSSWK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	4e-54	38	337	103	378	Protein SCARECROW
5b3h_A	3e-54	38	337	102	377	Protein SCARECROW
5b3h_D	3e-54	38	337	102	377	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor required for axillary (lateral) shoot meristem formation during vegetative development. Seems to act upstream of REVOLUTA. {ECO:0000269\|PubMed:12730136}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01556.1_g00002.1

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	HQ324235	0.0	HQ324235.1 Brassica rapa cultivar 1151 transcription factor LAS (LAS) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018483336.1	0.0	PREDICTED: scarecrow-like protein 18
Swissprot	Q9ZWC5	0.0	SCL18_ARATH; Scarecrow-like protein 18
TrEMBL	A0A1J3E1D6	0.0	A0A1J3E1D6_NOCCA; Scarecrow-like protein 18
STRING	Bo6g034670.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11329	27	33

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G55580.1	0.0	GRAS family protein

Publications ? help Back to Top
Zhang B, et al. Novel function of a putative MOC1 ortholog associated with spikelet number per spike in common wheat. Sci Rep, 2015. 5: p. 12211 [PMID:26197925]