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 Sobic.001G428600.2.p
Common NameSb01g040270, SORBIDRAFT_01g040270
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family GRAS
Protein Properties Length: 557aa    MW: 58848 Da    PI: 4.7741
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G428600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS2952e-901255081373
                  GRAS   1 lvelLlecAeavssgdle.laqalLarlselaspdgdpmqRlaayfteALaarlarsvs..elykalppsetsekn.....sseelaal 81 
                           l +lL+++Aea+s ++++ +  ++++++ ++a+   ++m+Rla++ft AL+  l +s +  ++ ++ ++ ++   +     + ++l+a+
  Sobic.001G428600.2.p 125 LLHLLMAAAEALSGQQKSrELARMVSHIGDNAAV--SNMERLATHFTDALQGLLDGSHPigGVGRQAAAAAS---HghlphTGDVLTAF 208
                           579*********9855442667777777777665..68*****************95542234444433333...23457799****** PP

                  GRAS  82 klfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRp..egppslRiTgvgspesgskeeleetgerLakf 168
                           ++++++sP++kf+h+taNqaIleav+g++rvH++D+di +G+QW++L+qa++sRp   +pp+lRiT+v++   g +++++e g+rLa f
  Sobic.001G428600.2.p 209 QMLQDMSPYMKFGHFTANQAILEAVAGDRRVHVVDYDIAEGVQWASLMQAMTSRPdgVPPPHLRITAVSRGGGGGARAVQEAGRRLAAF 297
                           *******************************************************777799*********7777*************** PP

                  GRAS 169 AeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsles.erdevLklvkslsPkvvvvveqe...adhnse.. 251
                           A+++g pf+f     ++ e +++ + r+ +gE+l+ n+vl+       +v  +     ++L  + +l +kvv+vve++   a+      
  Sobic.001G428600.2.p 298 AASIGQPFSFGQCRLDSDERFRPATVRMVKGETLVANCVLNQAAAT-TTVRRPTgSVASFLAGMATLGAKVVTVVEEDqgdAEK--Dde 383
                           ************9999************************877776.444444347999******************9533333..244 PP

                  GRAS 252 ...sFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqa 337
                               F++rf+e l+ ysa+ dslea++p++s+ r  vEr++l+++i  +v+ + +++  + e  + W e+++  GF++vpls ++ +qa
  Sobic.001G428600.2.p 384 evgGFVARFMEELHRYSAVWDSLEAGFPTQSRVRGLVERAILAPNIAGAVSRAYRASDGDGEARAGWGEWMRGNGFRAVPLSCFNHSQA 472
                           6779************************************************************************************* PP

                  GRAS 338 klllrkvksdgyrveees.gslvlgWkdrpLvsvSaW 373
                           +lll  ++ dgy++ee s + +vlgWk r+L+s+S+W
  Sobic.001G428600.2.p 473 RLLLGLFN-DGYTMEETSpNKIVLGWKARRLLSASVW 508
                           ********.******88626777************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098547.07299489IPR005202Transcription factor GRAS
PfamPF035146.8E-88125508IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 557 aa     Download sequence    Send to blast
MEVTMDDVAG DVEFSGCSST TTSSSSPSLD DGMGMYAWNA LSPVADWGSL CPDDGAQDLH  60
GLIESMLCDD TLLGSADLNP AMFPDDVYYC SNGSAPSSTT TTNPGTPVNG GDAQKGDCHE  120
KGLRLLHLLM AAAEALSGQQ KSRELARMVS HIGDNAAVSN MERLATHFTD ALQGLLDGSH  180
PIGGVGRQAA AAASHGHLPH TGDVLTAFQM LQDMSPYMKF GHFTANQAIL EAVAGDRRVH  240
VVDYDIAEGV QWASLMQAMT SRPDGVPPPH LRITAVSRGG GGGARAVQEA GRRLAAFAAS  300
IGQPFSFGQC RLDSDERFRP ATVRMVKGET LVANCVLNQA AATTTVRRPT GSVASFLAGM  360
ATLGAKVVTV VEEDQGDAEK DDEEVGGFVA RFMEELHRYS AVWDSLEAGF PTQSRVRGLV  420
ERAILAPNIA GAVSRAYRAS DGDGEARAGW GEWMRGNGFR AVPLSCFNHS QARLLLGLFN  480
DGYTMEETSP NKIVLGWKAR RLLSASVWAP PPVSVPSSPT EGAFQPVGMS PTSGGVGRMD  540
FDYIDSFLVE PAYALV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A6e-5211451010380Protein SCARECROW
5b3h_A6e-521145109379Protein SCARECROW
5b3h_D6e-521145109379Protein SCARECROW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and leaves. {ECO:0000269|PubMed:15961668}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking and DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK). {ECO:0000269|PubMed:15961668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G428600.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced 24 hours after treatment with Nod factor or Sinorhizobium meliloti. {ECO:0000269|PubMed:15961668}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7270190.0KJ727019.1 Zea mays clone pUT4000 GRAS transcription factor (GRAS61) gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002468140.20.0nodulation-signaling pathway 2 protein
SwissprotQ5NE241e-151NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLA0A1Z5SAP10.0A0A1Z5SAP1_SORBI; Uncharacterized protein
STRINGSb01g040270.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP75803148
Representative plantOGRP68391319
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08250.11e-90GRAS family protein
Publications ? help Back to Top
  1. 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]