PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Glyma.16G008200.1.p
Common NameGLYMA_16G008200, LOC100810818
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family GRAS
Protein Properties Length: 544aa    MW: 60153.8 Da    PI: 6.123
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.16G008200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS241.82.9e-741585312374
                 GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                          ++lL  cA a++ g+l+++q+l   l+elasp+gd+++Rlaa+ ++AL ++l++s s+ + ++++se +        + l  f+evsP++
  Glyma.16G008200.1.p 158 EQLLNPCAAAITGGNLNRVQHLSYVLHELASPTGDANHRLAAHGLKALTQHLSSSPSSGSITFASSEPR-----FFQKTLLKFYEVSPWF 242
                          689***************************************************555555444544444.....33334444******** PP

                 GRAS  92 kfshltaNqaIleavege.....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.......skeeleetgerLakf 168
                           f + +aN  Il+ + ++     +++Hi+D+++s+G+QWp++l+aL+ Rp ++pp +R+T+v +++s+             +  +rL  f
  Glyma.16G008200.1.p 243 SFPNNIANASILQVLGEDtdnnsRTLHILDIGVSHGMQWPTFLEALSRRPgGPPPLVRLTVVTASSSTendtpfcIGPPGDNFSSRLLGF 332
                          ************99876666667899************************55566*******99888888888877788999******** PP

                 GRAS 169 AeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh..n.sesFle 255
                          A++++v++++n l    l++l+ ++ +++p+E  +V+ +++lh+l    ++ ++er+e+Lk++++++Pk v+++++++ +  n  ++F +
  Glyma.16G008200.1.p 333 AQSMNVNLQINKLDNCPLHTLNAQSVDTSPDEIFVVCAQFRLHQLN---HNAPDERSEFLKVLRNMEPKGVILSDNNMGCccNcCGDFTT 419
                          ************9777*****************************8...66666778********************8775431469*** PP

                 GRAS 256 rflealeyysalfdsl.eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkv 344
                          +f++ +ey + ++ds+ +a  +res+er+++E      e+ ++++++ +     +e +ekW er++eaGF    ++e+a +  ++llrk+
  Glyma.16G008200.1.p 420 GFSRRVEYLWRFLDSTsSAFKGRESDERRVME-----GEAAKALTNQRET----NEGKEKWCERMKEAGFVGEVFGEDAIDGGRALLRKY 500
                          ****************4444455555555555.....5577777766555....9*********************************** PP

                 GRAS 345 k.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                          + +++++ve+++ s+ l Wk++++ ++S W+
  Glyma.16G008200.1.p 501 DgNWEMKVEDDNTSVGLWWKGQSVSFCSLWK 531
                          *9999*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098538.041131510IPR005202Transcription factor GRAS
PfamPF035141.0E-71158531IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 544 aa     Download sequence    Send to blast
MIMEPNPTSD HSLDWFEGSV SYFPPLLDYP YDSGDIQDYQ LWEQDITSHY QTDTNTSSSP  60
NATNISTTTT PLETCDSNNN LPLSDLPKKR NATDESSPKP PQNHKHKKIK SKPINNEAYT  120
GHAEGTTTTT VRKSGGNKKG GAKANGNNCN NKDGRWAEQL LNPCAAAITG GNLNRVQHLS  180
YVLHELASPT GDANHRLAAH GLKALTQHLS SSPSSGSITF ASSEPRFFQK TLLKFYEVSP  240
WFSFPNNIAN ASILQVLGED TDNNSRTLHI LDIGVSHGMQ WPTFLEALSR RPGGPPPLVR  300
LTVVTASSST ENDTPFCIGP PGDNFSSRLL GFAQSMNVNL QINKLDNCPL HTLNAQSVDT  360
SPDEIFVVCA QFRLHQLNHN APDERSEFLK VLRNMEPKGV ILSDNNMGCC CNCCGDFTTG  420
FSRRVEYLWR FLDSTSSAFK GRESDERRVM EGEAAKALTN QRETNEGKEK WCERMKEAGF  480
VGEVFGEDAI DGGRALLRKY DGNWEMKVED DNTSVGLWWK GQSVSFCSLW KLDGNYKTST  540
FTS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B3e-3815153181473Protein SHORT-ROOT
5b3h_B2e-3815153127419Protein SHORT-ROOT
5b3h_E2e-3815153127419Protein SHORT-ROOT
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in epidermal and cortical root cells. {ECO:0000269|PubMed:15961669}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.16G008200.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003548366.10.0nodulation-signaling pathway 1 protein
RefseqXP_028206083.10.0nodulation-signaling pathway 1 protein-like
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A445GCP00.0A0A445GCP0_GLYSO; Nodulation-signaling pathway 1 protein
TrEMBLI1MK090.0I1MK09_SOYBN; Uncharacterized protein
STRINGGLYMA16G01020.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68743447
Representative plantOGRP40821525
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-150GRAS 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]