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 Niben101Scf02749g04007.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family GRAS
Protein Properties Length: 537aa    MW: 60492.8 Da    PI: 5.9533
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf02749g04007.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS2414.8e-741555342374
                      GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl..f 84 
                               ++lL  cA a++ g+++++q+lL  l+elas + d+++Rlaa+ ++AL ++l++ +s+  + + +++ +++  +++++ ++l  f
  Niben101Scf02749g04007.1 155 EHLLNPCAAAITVGNMNRVQHLLYVLHELASFTCDANHRLAAHGLRALTHHLSSPGSSS-SPVDVTNFASSA-THKFFRDSLinF 237
                               699**************************************************944443.344555555333.33333333357* PP

                      GRAS  85 sevsPilkfshltaNqaIleavege...ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........ske 156
                               +++sP++++ + +aN+ +l+ + ++   + +Hi+D+++s+G+QWp+Ll++L+ R+ ++pp +R+T++ + +++            
  Niben101Scf02749g04007.1 238 NDISPWFRIPNSIANSSVLQILGEQdklNNLHILDIGVSHGVQWPTLLEELTRRSgGPPPLVRLTVITPTTENgefrgtpfvIGP 322
                               **********************999555556************************55666*********8887899998888788 PP

                      GRAS 157 eleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvv 240
                                  +  ++L  fA++++v++++n l    l++l+ + L+ ++ +E+l+++ +++lh+l    +s+++er+e+L+++k+l Pk vv
  Niben101Scf02749g04007.1 323 PGYNFSSQLLAFAKAINVNLQINRLDNFPLQNLNSQILKSSSdDETLVICAQFRLHNLN---HSIPDERTELLRILKNLDPKGVV 404
                               88999*******************8777**********99988***************8...9999999**************** PP

                      GRAS 241 vveqeadh..ns.esFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleea 322
                               ++e+++d+  ns ++F++ f++ +ey + ++ds+++ +    + r + Er++++ e+ +++++ g++    +e++ekW er++++
  Niben101Scf02749g04007.1 405 LSENNIDCscNScGDFATTFSRRVEYLWRFLDSTSVAY----KGRESEERRMMEGEAAKALTNMGEM----NERKEKWCERMTSV 481
                               ****96664354259*******************9885....7777888888888899*******99....88888********* PP

                      GRAS 323 GFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                               GF +  ++e+a + a++ll+k++ +++ rvee++g++ l Wk++p+ ++S W+
  Niben101Scf02749g04007.1 482 GFVKEVFGEDAIDGARALLKKYDsNWEIRVEERDGCVDLWWKGQPISFCSLWK 534
                               ***********************9999*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098537.407128513IPR005202Transcription factor GRAS
PfamPF035141.7E-71155534IPR005202Transcription 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
Sequence ? help Back to Top
Protein Sequence    Length: 537 aa     Download sequence    Send to blast
MTIDEPEPNS NSDPISEWLD TLSDVPTFLD EPYNCPEDLN FYGDSWWIPP NQDEHIISHG  60
IIHNDIRTSF NYSSPVNTAT STTPPEPIIL DHPQPLDLSK KRKTSGPDHN PKVSRKNQNR  120
QMNEADEIKK STGQKRVTNK STGNNGTNKE GRWAEHLLNP CAAAITVGNM NRVQHLLYVL  180
HELASFTCDA NHRLAAHGLR ALTHHLSSPG SSSSPVDVTN FASSATHKFF RDSLINFNDI  240
SPWFRIPNSI ANSSVLQILG EQDKLNNLHI LDIGVSHGVQ WPTLLEELTR RSGGPPPLVR  300
LTVITPTTEN GEFRGTPFVI GPPGYNFSSQ LLAFAKAINV NLQINRLDNF PLQNLNSQIL  360
KSSSDDETLV ICAQFRLHNL NHSIPDERTE LLRILKNLDP KGVVLSENNI DCSCNSCGDF  420
ATTFSRRVEY LWRFLDSTSV AYKGRESEER RMMEGEAAKA LTNMGEMNER KEKWCERMTS  480
VGFVKEVFGE DAIDGARALL KKYDSNWEIR VEERDGCVDL WWKGQPISFC SLWKIDS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B1e-3015153484473Protein SHORT-ROOT
5b3h_B8e-3115153430419Protein SHORT-ROOT
5b3h_E8e-3115153430419Protein SHORT-ROOT
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. 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019255393.10.0PREDICTED: nodulation-signaling pathway 1 protein-like
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0MSK80.0A0MSK8_NICBE; Nodulation signaling pathway 1-like protein
STRINGXP_009600029.10.0(Nicotiana tomentosiformis)
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-145GRAS 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. 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]
  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]