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

Sopim02g094340.0.1

Organism

Solanum pimpinellifolium

Taxonomic ID

4084

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

GRAS

Protein Properties

Length: 681aa MW: 75476.2 Da PI: 5.2628

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopim02g094340.0.1	genome	CSHL	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	434.2	1e-132	315	679	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsets..eknsseelaalklfsevsP 89 lv+lLl+cAeavs++d la+++L +l+ ++p gd+mqR+a++fteAL arla + + ++ p++ + + ns e l++++++++++P Sopim02g094340.0.1 315 LVHLLLACAEAVSKEDYMLARRYLHHLNRVVTPIGDSMQRVASCFTEALTARLAATLATKPSTSVPKPFNpfPPNSLEILKIYQILYQACP 405 68**************************************************955444444444443301456************ PP GRAS 90 ilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnv 180 ++kf+h+taNqaI ea+e eervH+iD+di qG QWpa++qaLa+Rp+g+p lRiTgvgs e+++etg+ L+++A++l+vpfef++ Sopim02g094340.0.1 406 YVKFAHFTANQAIFEAFEAEERVHVIDLDILQGYQWPAFMQALAARPGGAPFLRITGVGS----YPEAVRETGRCLTELAQSLHVPFEFHP 492 ********************************************************....9********************** PP GRAS 181 lvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsl 271 v ++ledl++++++ + gEalaVn+v +lhr++ ++ ++L ++++ P++v++veqea+hn++ Fl rfleal+yysa+fdsl Sopim02g094340.0.1 493 -VGEQLEDLKPHMFNRRIGEALAVNSVNRLHRVP--GN----CIGNLLGMIRDQAPNIVTIVEQEASHNGPYFLGRFLEALHYYSAIFDSL 576 .7***************************9..33....4446***************************************** PP GRAS 272 eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgW 362 +a++p +s++r+k+E+ ++g+ei+n+v+ceg er rhe+lekWr+ +e GFk v+ls +a++q k ll ++ dgy++ e++g+l+lgW Sopim02g094340.0.1 577 DATFPGDSSQRAKLEQYIFGPEIMNIVSCEGMERMVRHERLEKWRRVMEGKGFKGVALSANAVTQSKILLGLYSCDGYKLTEDNGCLLLGW 667 *************************************************************************************** PP GRAS 363 kdrpLvsvSaWr 374 +dr+++++SaWr Sopim02g094340.0.1 668 QDRAILAASAWR 679 *********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	66.402	289	659	IPR005202	Transcription factor GRAS
Pfam	PF03514	3.4E-130	315	679	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 681 aa Download sequence Send to blast
MGSLKNDIIK NEVGSEITSF KDQNSYIKLL PEDSLASSES KKVTPISSDF ELDCGSLIPT 60 SLTFPPGGGD DDDVEIQSPD NSIWESFFAD QLEADFMISS PVRNLSSTST FCTTTTTHNN 120 NTYTHHNQGI HGQSMMMCSP PRSPLRPNNY NSTNKGKGLS PFQKVFNSPN NQFMQIESFN 180 LPALESFLDD DLASEYSTLK VSDVGSSSES LSVIPDFLEC LALPNSSSNT SASFMGSLLS 240 NTSVGQVDDE IFQTGSIAPL SQQLHQERHH EKQQKQIPTH VQLPSTQQQY TQMINHNLVV 300 AAPDQMQEQD SGLQLVHLLL ACAEAVSKED YMLARRYLHH LNRVVTPIGD SMQRVASCFT 360 EALTARLAAT LATKPSTSVP KPFNPFPPNS LEILKIYQIL YQACPYVKFA HFTANQAIFE 420 AFEAEERVHV IDLDILQGYQ WPAFMQALAA RPGGAPFLRI TGVGSYPEAV RETGRCLTEL 480 AQSLHVPFEF HPVGEQLEDL KPHMFNRRIG EALAVNSVNR LHRVPGNCIG NLLGMIRDQA 540 PNIVTIVEQE ASHNGPYFLG RFLEALHYYS AIFDSLDATF PGDSSQRAKL EQYIFGPEIM 600 NIVSCEGMER MVRHERLEKW RRVMEGKGFK GVALSANAVT QSKILLGLYS CDGYKLTEDN 660 GCLLLGWQDR AILAASAWRC *

Sequence ? help Back to Top

Protein Sequence Length: 681 aa Download sequence Send to blast

MGSLKNDIIK NEVGSEITSF KDQNSYIKLL PEDSLASSES KKVTPISSDF ELDCGSLIPT  60
SLTFPPGGGD DDDVEIQSPD NSIWESFFAD QLEADFMISS PVRNLSSTST FCTTTTTHNN  120
NTYTHHNQGI HGQSMMMCSP PRSPLRPNNY NSTNKGKGLS PFQKVFNSPN NQFMQIESFN  180
LPALESFLDD DLASEYSTLK VSDVGSSSES LSVIPDFLEC LALPNSSSNT SASFMGSLLS  240
NTSVGQVDDE IFQTGSIAPL SQQLHQERHH EKQQKQIPTH VQLPSTQQQY TQMINHNLVV  300
AAPDQMQEQD SGLQLVHLLL ACAEAVSKED YMLARRYLHH LNRVVTPIGD SMQRVASCFT  360
EALTARLAAT LATKPSTSVP KPFNPFPPNS LEILKIYQIL YQACPYVKFA HFTANQAIFE  420
AFEAEERVHV IDLDILQGYQ WPAFMQALAA RPGGAPFLRI TGVGSYPEAV RETGRCLTEL  480
AQSLHVPFEF HPVGEQLEDL KPHMFNRRIG EALAVNSVNR LHRVPGNCIG NLLGMIRDQA  540
PNIVTIVEQE ASHNGPYFLG RFLEALHYYS AIFDSLDATF PGDSSQRAKL EQYIFGPEIM  600
NIVSCEGMER MVRHERLEKW RRVMEGKGFK GVALSANAVT QSKILLGLYS CDGYKLTEDN  660
GCLLLGWQDR AILAASAWRC *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_A	3e-98	322	678	25	377	Protein SCARECROW
5b3h_D	3e-98	322	678	25	377	Protein SCARECROW
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that functions in mycorrhizal specific signaling (PubMed:23122845). Required for Myc factor signaling from mycorrhizal fungi, but has no function in Nod factor signaling from rhizobial bacteria (PubMed:23122845). Regulates the expression of RAM2, a glycerol-3-phosphate acyl transferase that promotes cutin biosynthesis to enhance mycorrhizal hyphopodia formation (PubMed:23122845). {ECO:0000269\|PubMed:23122845}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced in roots during colonization by arbuscular mycorrhizal fungi. {ECO:0000269\|PubMed:23122845}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC215432	0.0	AC215432.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02HBa0257H21, complete sequence.
GenBank	AC215457	0.0	AC215457.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02SLe0061K08, complete sequence.
GenBank	HG975514	0.0	HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019068113.1	0.0	DELLA protein RGL1-like
Swissprot	G7L166	0.0	RAM1_MEDTR; GRAS family protein RAM1
TrEMBL	K4BDM9	0.0	K4BDM9_SOLLC; Uncharacterized protein
STRING	Solyc02g094340.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA12566	19	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66350.1	3e-98	RGA-like 1

Publications ? help Back to Top
Tang H, et al. An improved genome release (version Mt4.0) for the model legume Medicago truncatula. BMC Genomics, 2014. 15: p. 312 [PMID:24767513] Pecrix Y, et al. Whole-genome landscape of Medicago truncatula symbiotic genes. Nat Plants, 2018. 4(12): p. 1017-1025 [PMID:30397259]