PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm_27.model.AmTr_v1.0_scaffold00156.32
Common NameAMTR_s00156p00061400
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family GRAS
Protein Properties Length: 504aa    MW: 55473.8 Da    PI: 5.3368
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00156.32genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS331.51.6e-1011254911373
                                     GRAS   1 lvelLlecAeavss..gdlelaqalLarlselaspdg.dpmqRlaayfteALaarlarsvselykalpps 67 
                                              lv+lL+++Aeav+   ++  la  +L rl+el+sp++  +++Rlaayfte+L+  l +++++      ++
  evm_27.model.AmTr_v1.0_scaffold00156.32 125 LVHLLVAAAEAVTGaaKSRDLAWVILVRLKELVSPTQgCNIERLAAYFTEGLQCLLEGHGPKPG----SW 190
                                              68**********873356669***********8887648*******************443333....33 PP

                                     GRAS  68 etseknsseelaalklfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRp. 136
                                              +++   +++ + a++l++++sP++kf+h+taNqaIleav +e+rvH++Dfdi +G+QW++L+qaL+sR+ 
  evm_27.model.AmTr_v1.0_scaffold00156.32 191 PDP---QADLMGAFQLLQDMSPCIKFAHFTANQAILEAVTSERRVHVLDFDIIEGAQWASLMQALSSRTq 257
                                              333...8899***********************************************************6 PP

                                     GRAS 137 ..egppslRiTgvgspesg...skeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpgEa 201
                                                ++ p+lRiT+v +  ++      +++etg+rL  fA+++g pf+f+    +  e++++++ ++ +gEa
  evm_27.model.AmTr_v1.0_scaffold00156.32 258 gqAPVPHLRITAVTRGGQSgrrALATVQETGRRLVAFAASIGQPFSFHQCRLDPDEKFRPDAVKLVKGEA 327
                                              655678********9776678788899**********************9999***************** PP

                                     GRAS 202 laVnlvlqlhrll.desvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfds 270
                                              l+ n+vl+l +   + ++s++    ++L+  k+l Pkvv++ve+e+  ++e F +rf+e l++ysa++ds
  evm_27.model.AmTr_v1.0_scaffold00156.32 328 LVANCVLHLPHSTyRTPGSVA----SFLNGAKELGPKVVTLVEEEMMSSTEGFEARFMELLHHYSAVYDS 393
                                              *******98665504444555....5******************************************** PP

                                     GRAS 271 leaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqakll 340
                                              lea++p++ ++r++vEr++lg++i   +a  +++    h + ++W e+++++GFkp+p++ ++ +qakll
  evm_27.model.AmTr_v1.0_scaffold00156.32 394 LEASFPQQGRARAMVERVFLGPRIAASLAYHHQQ----HGRGGSWAEWMGSVGFKPLPVTFFNHCQAKLL 459
                                              *****************************99998....******************************** PP

                                     GRAS 341 lrkvksdgyrveeesgslvlgWkdrpLvsvSaW 373
                                              +  ++ dg+rvee +  lvlgW +r+Lvs+S+W
  evm_27.model.AmTr_v1.0_scaffold00156.32 460 VGLFS-DGFRVEEARSRLVLGWGSRQLVSASVW 491
                                              *****.*************************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098550.2399473IPR005202Transcription factor GRAS
PfamPF035145.4E-99125491IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
Sequence ? help Back to Top
Protein Sequence    Length: 504 aa     Download sequence    Send to blast
MEAVFDFENE HQWFDFRPEK LLVKCNSTAS SGCSTATLEE EMCEWQHELS GLDGRSVYQD  60
GAPLIADEDE WMVGGEEEWE MNGLLESMMD EPSWSDGGSQ FGVVSDDEWG ARPVDEGDDS  120
KGLRLVHLLV AAAEAVTGAA KSRDLAWVIL VRLKELVSPT QGCNIERLAA YFTEGLQCLL  180
EGHGPKPGSW PDPQADLMGA FQLLQDMSPC IKFAHFTANQ AILEAVTSER RVHVLDFDII  240
EGAQWASLMQ ALSSRTQGQA PVPHLRITAV TRGGQSGRRA LATVQETGRR LVAFAASIGQ  300
PFSFHQCRLD PDEKFRPDAV KLVKGEALVA NCVLHLPHST YRTPGSVASF LNGAKELGPK  360
VVTLVEEEMM SSTEGFEARF MELLHHYSAV YDSLEASFPQ QGRARAMVER VFLGPRIAAS  420
LAYHHQQHGR GGSWAEWMGS VGFKPLPVTF FNHCQAKLLV GLFSDGFRVE EARSRLVLGW  480
GSRQLVSASV WGHNCHSCKK KGL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-5211949113378Protein SCARECROW
Search in ModeBase
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}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020524303.10.0nodulation-signaling pathway 2 protein
SwissprotQ5NE241e-168NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLW1PKW70.0W1PKW7_AMBTC; Uncharacterized protein
STRINGERN083110.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP68391319
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08250.11e-124GRAS family protein
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  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]