PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sme2.5_01146.1_g00010.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family GRAS
Protein Properties Length: 454aa    MW: 51142.3 Da    PI: 5.4688
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sme2.5_01146.1_g00010.1genomeEGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS113.72.4e-351593122149
                     GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlar..svselykalppsetseknsseelaalklfs 85 
                              ++lL  cA a++ g+++++q++L  l+ela+ +gd+++Rlaa+ ++AL ++l++  s+se ++++  ++ ++ n++    ++  f+
  Sme2.5_01146.1_g00010.1 159 EHLLNPCAAAITVGNMNRVQHFLYVLNELAAFAGDANHRLAAHGLRALTHHLSSpaSSSESSASVGITNFASANHKFFRDSMINFN 244
                              699**************************************************9655666666777888887778888788888** PP

                     GRAS  86 evsPilkfshltaNqaIleavege...ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgs 149
                              ++sP++++ + +aN+ +l+ + ++   + +Hi+D+++s+G+QWp+Ll++L+ R+ ++pp +R+T++ +
  Sme2.5_01146.1_g00010.1 245 DISPWFRIHNNIANSSVLQIIGEQdrlKNLHILDIGVSHGFQWPTLLEELTRRSgGPPPLVRLTVITP 312
                              **********************99555556************************55666******988 PP

2GRAS65.41.1e-20325453240374
                     GRAS 240 vvveqeadhns.esFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGF 324
                              v+   e+++ns ++F+  f++ +ey + ++ds+++ +    + r + Er++++ e+ +++ + g++    +e++ekW er++++GF
  Sme2.5_01146.1_g00010.1 325 VIGPPECSCNScGDFAMTFSRRVEYLWGFLDSTSVAY----KGRESEERRMMEGEAAKALINMGEM----NERKEKWCERMRSVGF 402
                              56667889955279*******************8885....6666667777777788888888888....78888*********** PP

                     GRAS 325 kpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                               +  ++e++ + a++llrk++ ++++rvee++g++ l Wk++p+ ++S W+
  Sme2.5_01146.1_g00010.1 403 VKEVFGEDVIDGARALLRKYDsNWEMRVEEKDGCVDLWWKGQPISFCSLWK 453
                              *********************9999*************************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098521.18132454IPR005202Transcription factor GRAS
PfamPF035148.4E-33159312IPR005202Transcription factor GRAS
PfamPF035144.0E-18325453IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 454 aa     Download sequence    Send to blast
MAIDEPEPNS NSDPIAEWLA TTLSDVPSFL DGYTDDLSFY GDSWWDPDQD DQIVNHNIII  60
DNTFNISSTV NTDISNIPPE PILLDHPQPL DLPKKRKTSS SDHNPKVSRK NPNRQMNEEE  120
DARAVVDQGV QVRRSTGPRR VTTRTTGNNS NNKEGRWAEH LLNPCAAAIT VGNMNRVQHF  180
LYVLNELAAF AGDANHRLAA HGLRALTHHL SSPASSSESS ASVGITNFAS ANHKFFRDSM  240
INFNDISPWF RIHNNIANSS VLQIIGEQDR LKNLHILDIG VSHGFQWPTL LEELTRRSGG  300
PPPLVRLTVI TPTIENGEMR GTPFVIGPPE CSCNSCGDFA MTFSRRVEYL WGFLDSTSVA  360
YKGRESEERR MMEGEAAKAL INMGEMNERK EKWCERMRSV GFVKEVFGED VIDGARALLR  420
KYDSNWEMRV EEKDGCVDLW WKGQPISFCS LWKI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B2e-1515531184237Protein SHORT-ROOT
5b3h_B2e-1515531130183Protein SHORT-ROOT
5b3h_E2e-1515531130183Protein SHORT-ROOT
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
19298PKKRKTS
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking. May be a target of DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK) (PubMed:15961669). Is essential for Nod factor-elicited expression of ERN1 (PubMed:23077241). {ECO:0000269|PubMed:15961669, ECO:0000269|PubMed:23077241}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016562454.10.0PREDICTED: nodulation-signaling pathway 1 protein-like
SwissprotQ4VYC82e-80NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A1U8G3930.0A0A1U8G393_CAPAN; nodulation-signaling pathway 1 protein-like
STRINGPGSC0003DMT4000896920.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA49492139
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-60GRAS family protein
Publications ? help Back to Top
  1. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  2. 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]