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 Niben101Scf25596g00004.1
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: 355aa    MW: 39675.2 Da    PI: 6.2375
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf25596g00004.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS153.32.2e-471402731137
                      GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfs 85 
                               l+++L++cA+avs+gdl  aq l+++l++++s +g+p+qRl ay++e+L arla s+s+++k+l+++e +   s e l+++++++
  Niben101Scf25596g00004.1 140 LKHVLIACAKAVSDGDLLTAQVLISELRQMVSVSGEPIQRLGAYILEGLVARLAASGSSICKSLRCKEPA---SFELLSYMHMLY 221
                               689******************************************************************9...9*********** PP

                      GRAS  86 evsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpe 137
                               e++P++kf+++ aN aI ea++ e+rvHiiDf+i qG QW++L+qa+a+Rp+
  Niben101Scf25596g00004.1 222 EICPYFKFGYMSANGAIAEAMKDENRVHIIDFQIAQGSQWVTLIQAFAARPA 273
                               **************************************************95 PP
2GRAS89.55.4e-28274355292374
                      GRAS 292 reivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                               r++vn++aceg er+erhe l+kW++r+++aGF+p+pls+ +++++k+ll+ +++  yr+ee++g+l+lgW++r Lv+ +aW+
  Niben101Scf25596g00004.1 274 RDVVNIIACEGIERVERHELLGKWKSRFRMAGFSPYPLSSLVNATIKRLLESYSD-KYRLEERDGALYLGWMNRDLVASCAWK 355
                               89****************************************************5.5*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098528.454114355IPR005202Transcription factor GRAS
PfamPF035147.5E-45140273IPR005202Transcription factor GRAS
PfamPF035141.9E-25274355IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 355 aa     Download sequence    Send to blast
MSNTLYYQPV QKAEAYCLPQ FQTLDNHLSY INGSHGVYHS PSTASFSSNG SSICHQESQP  60
YLSDVRQSSE TTNYGSPTSG SCITDGANDF MHKLKELETV MLGPDSDFLE SYDISLPSCI  120
ASTEINSWKQ MMEAMPRRDL KHVLIACAKA VSDGDLLTAQ VLISELRQMV SVSGEPIQRL  180
GAYILEGLVA RLAASGSSIC KSLRCKEPAS FELLSYMHML YEICPYFKFG YMSANGAIAE  240
AMKDENRVHI IDFQIAQGSQ WVTLIQAFAA RPARDVVNII ACEGIERVER HELLGKWKSR  300
FRMAGFSPYP LSSLVNATIK RLLESYSDKY RLEERDGALY LGWMNRDLVA SCAWK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-1614727326155Protein SCARECROW
5b3h_A2e-1614727325154Protein SCARECROW
5b3h_D2e-1614727325154Protein SCARECROW
5hyz_A1e-161442728135GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019250098.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_019250099.10.0PREDICTED: scarecrow-like transcription factor PAT1
SwissprotQ9LDL78e-92PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A1J6I6W30.0A0A1J6I6W3_NICAT; Scarecrow-like transcription factor pat1
STRINGXP_009784447.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA68124111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.24e-94GRAS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]