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 Lj1g3v0785930.1
Common Namensp2, TINod
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family GRAS
Protein Properties Length: 509aa    MW: 55792.4 Da    PI: 5.9868
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj1g3v0785930.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS338.89.4e-1041255011374
             GRAS   1 lvelLlecAeavss..gdlelaqalLarlselaspdg.dpmqRlaayfteALaarlarsvselykal...ppsetseknsseelaalklfsevs 88 
                      lv+lL++ Aea++   ++ ela+ +L rl+el+s ++ ++m+RlaayfteAL+  l + +    ++         +++ + ++laa++l++++s
  Lj1g3v0785930.1 125 LVHLLMAGAEALTGanKNRELARVILVRLKELVSHTDgTNMERLAAYFTEALQGLLEGAGGAYNSSSkhhVIGGPHHEPQNDALAAFQLLQDMS 218
                      689*********87335666************665544*******************94433332221113334444559************** PP

             GRAS  89 PilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnv 180
                      P++kf+h+taNqaI+eav++e+rvHi+D+di++G+QW++L+qaLas p+g p+lRiT+++++  g  s  +++etg+rL+ fA++lg pf+f+ 
  Lj1g3v0785930.1 219 PYVKFGHFTANQAIVEAVAHERRVHIVDYDIMEGVQWASLMQALASNPNG-PHLRITALSRSGVGrrSMATVQETGRRLTAFATSLGQPFSFHH 311
                      ***********************************************999.9*********7666999*************************9 PP

             GRAS 181 lvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleak 274
                         ++ e++++  L++ +gEal+ n++l+l +l  +s ++     ++L + k l+P++v+vve+e+    + F+erf+++l+++sa+fdslea+
  Lj1g3v0785930.1 312 SRLESDETFRPAGLKLVRGEALVFNCMLNLPHLTYRSPNSVA---SFLTAAKALRPRLVTVVEEEVGSALGGFVERFMDSLHHFSAVFDSLEAG 402
                      88889999************************9966666666...9************************************************ PP

             GRAS 275 lpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveee.sgslvlgWkdrpL 367
                      +p + ++r+ vEr++lg++iv  +a   +      e+ ++Wre+l++aGF+ v++s+ + +q +lll  ++ dgyrvee  s+ lvl Wk+r+L
  Lj1g3v0785930.1 403 FPMQGRARALVERVFLGPRIVGSLARIYRT-GGGGEERGSWREWLRAAGFSGVAVSSANHCQSNLLLGLFN-DGYRVEELgSNKLVLHWKTRRL 494
                      ****************************99.7778889*********************************.******987999********** PP

             GRAS 368 vsvSaWr 374
                      +s+S W+
  Lj1g3v0785930.1 495 LSASLWT 501
                      ******6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098551.43299481IPR005202Transcription factor GRAS
PfamPF035143.3E-101125501IPR005202Transcription 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: 509 aa     Download sequence    Send to blast
MILLNSTTSG MEMDIDCIHH LDFSGHSTLT NTPSSDNDNY GCSWNHWSPV VNWDAFTGNQ  60
DDFHHLIDSM IDDNNTGPAF SDHTASTTSE EEEEEEATTT TMTTTTTTTT TTPEAADDDF  120
KGLRLVHLLM AGAEALTGAN KNRELARVIL VRLKELVSHT DGTNMERLAA YFTEALQGLL  180
EGAGGAYNSS SKHHVIGGPH HEPQNDALAA FQLLQDMSPY VKFGHFTANQ AIVEAVAHER  240
RVHIVDYDIM EGVQWASLMQ ALASNPNGPH LRITALSRSG VGRRSMATVQ ETGRRLTAFA  300
TSLGQPFSFH HSRLESDETF RPAGLKLVRG EALVFNCMLN LPHLTYRSPN SVASFLTAAK  360
ALRPRLVTVV EEEVGSALGG FVERFMDSLH HFSAVFDSLE AGFPMQGRAR ALVERVFLGP  420
RIVGSLARIY RTGGGGEERG SWREWLRAAG FSGVAVSSAN HCQSNLLLGL FNDGYRVEEL  480
GSNKLVLHWK TRRLLSASLW TCSSESDCA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A2e-5813350426381Protein SCARECROW
5b3h_D2e-5813350426381Protein 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
PlantRegMapLj1g3v0785930.1
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
GenBankAB2414560.0AB241456.1 Lotus japonicus TINod gene for transcription initiator for nodulation, complete cds.
GenBankDQ6659430.0DQ665943.1 Lotus japonicus nodulation signaling pathway 2 (nsp2) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004499407.10.0nodulation-signaling pathway 2 protein
SwissprotQ5NE240.0NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLQ2PEG70.0Q2PEG7_LOTJA; Nodulation signaling pathway 2
STRINGXP_004499407.10.0(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF62643152
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08250.11e-139GRAS family protein
Publications ? help Back to Top
  1. Heckmann AB, et al.
    Lotus japonicus nodulation requires two GRAS domain regulators, one of which is functionally conserved in a non-legume.
    Plant Physiol., 2006. 142(4): p. 1739-50
    [PMID:17071642]
  2. Murakami Y, et al.
    Positional cloning identifies Lotus japonicus NSP2, a putative transcription factor of the GRAS family, required for NIN and ENOD40 gene expression in nodule initiation.
    DNA Res., 2006. 13(6): p. 255-65
    [PMID:17244637]
  3. 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]