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 Cagra.2766s0005.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family GRAS
Protein Properties Length: 491aa    MW: 55037.8 Da    PI: 6.7282
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.2766s0005.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS462.82e-1411204902374
                 GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                          +  L++cA+a+s++dl +a++++++l++++s +g+p+qRl ay++e+L a+la+s+s++yk+l+  +++   s+e l+++++++ev+P++
  Cagra.2766s0005.1.p 120 RADLVSCAKAMSENDLMMAHSMMEKLRQMVSVSGEPIQRLGAYLLEGLVAQLASSGSSIYKSLNRCPEP--ASTELLSYMHILYEVCPYF 207
                          678************************************************************666665..499**************** PP

                 GRAS  92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefn 179
                          kf+++ aN aI ea+++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp++RiTg+++++s   +   l+ +g+rLak+A++++vpfefn
  Cagra.2766s0005.1.p 208 KFGYMSANGAIAEAMKEENRVHIIDFQIGQGSQWVTLIQAFAARPGGPPRIRITGIDDMTSAyaRGGGLSIVGNRLAKLAKQFNVPFEFN 297
                          **********************************************************999999999*********************** PP

                 GRAS 180 vlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfd 269
                          + v+ + +++++++L v+pgEalaVn+++ lh+++desvs+e++rd++L++vkslsPkvv++veqe+++n++ F+ rf+e+++yy+a+f+
  Cagra.2766s0005.1.p 298 P-VSVSASEVKPKNLGVRPGEALAVNFAFVLHHMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQESNTNTAAFFPRFMETMNYYAAMFE 386
                          *.7999************************************************************************************ PP

                 GRAS 270 sleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslv 359
                          s++++lpr++++ri+vE+++l+r++vn++acega+r+erhe l+kWr+r+e+aGF+p+pls  +++++k+llr+++++ yr+ee++g+l+
  Cagra.2766s0005.1.p 387 SIDVTLPRDHKQRINVEQHCLARDVVNIIACEGADRVERHELLGKWRSRFEMAGFTPYPLSPLVNSTIKSLLRTYSNK-YRLEERDGALY 475
                          ****************************************************************************66.*********** PP

                 GRAS 360 lgWkdrpLvsvSaWr 374
                          lgW++r Lv+ +aW+
  Cagra.2766s0005.1.p 476 LGWMHRDLVASCAWK 490
                          **************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098570.59593471IPR005202Transcription factor GRAS
PfamPF035147.0E-139120490IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009640Biological Processphotomorphogenesis
GO:0005737Cellular Componentcytoplasm
GO:0004871Molecular Functionsignal transducer activity
Sequence ? help Back to Top
Protein Sequence    Length: 491 aa     Download sequence    Send to blast
MYKQPRQEIE AYSFETNSAG KLRYLPVNNS RKRFCTLEPS PDSPGYNALS TATYEDTCGS  60
CVTDDLNDFK HKIKEIETVM MGPDSSDLVV DCTDSFDSSA CQEINSWRST LEAISRRDLR  120
ADLVSCAKAM SENDLMMAHS MMEKLRQMVS VSGEPIQRLG AYLLEGLVAQ LASSGSSIYK  180
SLNRCPEPAS TELLSYMHIL YEVCPYFKFG YMSANGAIAE AMKEENRVHI IDFQIGQGSQ  240
WVTLIQAFAA RPGGPPRIRI TGIDDMTSAY ARGGGLSIVG NRLAKLAKQF NVPFEFNPVS  300
VSASEVKPKN LGVRPGEALA VNFAFVLHHM PDESVSTENH RDRLLRMVKS LSPKVVTLVE  360
QESNTNTAAF FPRFMETMNY YAAMFESIDV TLPRDHKQRI NVEQHCLARD VVNIIACEGA  420
DRVERHELLG KWRSRFEMAG FTPYPLSPLV NSTIKSLLRT YSNKYRLEER DGALYLGWMH  480
RDLVASCAWK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A1e-671234908375GRAS 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.2766s0005.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1534430.0AF153443.1 Arabidopsis thaliana phytochrome A signal transduction 1 protein (PAT1) mRNA, complete cds.
GenBankAK3172520.0AK317252.1 Arabidopsis thaliana AT5G48150 mRNA, complete cds, clone: RAFL22-43-D17.
GenBankAK3177470.0AK317747.1 Arabidopsis thaliana AT5G48150 mRNA, complete cds, clone: RAFL22-04-F15.
GenBankBT0253260.0BT025326.1 Arabidopsis thaliana At5g48150 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006280361.10.0scarecrow-like transcription factor PAT1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLR0G9L10.0R0G9L1_9BRAS; Uncharacterized protein
STRINGCagra.2766s0005.1.p0.0(Capsella grandiflora)
STRINGXP_006280361.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62128141
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.20.0GRAS 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]