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 Pp3c1_2540V3.9.p
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family GRAS
Protein Properties Length: 503aa    MW: 55332.8 Da    PI: 5.1293
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c1_2540V3.9.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS466.12e-1421335022374
              GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                       ++lL++cAea+s++d+ la+ l+a+l++ +s +gdpmqRlaay++e+L ar+a s++++y++l++++ +   + + l+a+++++ev+P++kf+
  Pp3c1_2540V3.9.p 133 EQLLVACAEALSNNDMPLANVLIAQLNQVVSIYGDPMQRLAAYMVEGLVARVAASGKGIYRSLKCKDPP---TRDLLSAMQILYEVCPYFKFG 222
                       689*****************************************************************9...899****************** PP

              GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakr 185
                       +++aN  I ea+++e+rvHiiDf+i qG+QW +L+qaLa+Rp+gpp+lRiTg+++p +g  s+  +e +g+rLak+Ae++gvpf+f++ vak+
  Pp3c1_2540V3.9.p 223 YMAANGSIAEAFQNESRVHIIDFQIAQGTQWTTLIQALAARPGGPPHLRITGIDDPMPGpnSNAGVEMVGKRLAKLAEAVGVPFDFHP-VAKK 314
                       *********************************************************99999**************************.7*** PP

              GRAS 186 ledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpre 278
                         ++e ++L+ +pgEalaVn++l+lh+++desv+++++rd++L++vk l+Pkvv++veqe+++n+++F+ rflea++yy+a+f+sl+ +l+re
  Pp3c1_2540V3.9.p 315 GPEVEAWMLERQPGEALAVNFALHLHHMPDESVCTSNPRDRILHMVKALNPKVVTLVEQESNTNTAPFFPRFLEAMNYYAAIFESLDITLARE 407
                       ********************************************************************************************* PP

              GRAS 279 seerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvS 371
                       s+er++vE+++l+r+ivn++aceg +r+erhe ++kWr+rl++aGF+p+pls+++++++k+ll+ +++  yr+++e g+l+lgWk+r+L++ S
  Pp3c1_2540V3.9.p 408 SKERVNVEQQCLARDIVNIIACEGIDRVERHEMMGKWRARLTMAGFRPYPLSQTVNNTIKTLLESYSD-KYRLKDEGGALYLGWKNRSLIVSS 499
                       *******************************************************************5.5*********************** PP

              GRAS 372 aWr 374
                       aW+
  Pp3c1_2540V3.9.p 500 AWQ 502
                       **6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098571.629106483IPR005202Transcription factor GRAS
PfamPF035147.0E-140133502IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009640Biological Processphotomorphogenesis
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0004871Molecular Functionsignal transducer activity
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 503 aa     Download sequence    Send to blast
MDANIVMAVR YIPEEQYAQS QSNYAQRNPE MAHMLQVLES ALLDDDDGAD LPGSLGNGHD  60
PASEGNWADT IEEFMAADAS PADSSTVTSA TTPPEYGKQC RNGSTNNYTG AVTARVEEPP  120
PQKLVVGTRS RSEQLLVACA EALSNNDMPL ANVLIAQLNQ VVSIYGDPMQ RLAAYMVEGL  180
VARVAASGKG IYRSLKCKDP PTRDLLSAMQ ILYEVCPYFK FGYMAANGSI AEAFQNESRV  240
HIIDFQIAQG TQWTTLIQAL AARPGGPPHL RITGIDDPMP GPNSNAGVEM VGKRLAKLAE  300
AVGVPFDFHP VAKKGPEVEA WMLERQPGEA LAVNFALHLH HMPDESVCTS NPRDRILHMV  360
KALNPKVVTL VEQESNTNTA PFFPRFLEAM NYYAAIFESL DITLARESKE RVNVEQQCLA  420
RDIVNIIACE GIDRVERHEM MGKWRARLTM AGFRPYPLSQ TVNNTIKTLL ESYSDKYRLK  480
DEGGALYLGW KNRSLIVSSA WQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-7513950126378Protein SCARECROW
5b3h_A4e-7513950125377Protein SCARECROW
5b3h_D4e-7513950125377Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ppa.17130.0gametophore| protonema
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, shoots, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024379851.10.0scarecrow-like transcription factor PAT1
RefseqXP_024379861.10.0scarecrow-like transcription factor PAT1
RefseqXP_024379870.10.0scarecrow-like transcription factor PAT1
RefseqXP_024379876.10.0scarecrow-like transcription factor PAT1
RefseqXP_024379885.10.0scarecrow-like transcription factor PAT1
RefseqXP_024379891.10.0scarecrow-like transcription factor PAT1
RefseqXP_024379899.10.0scarecrow-like transcription factor PAT1
SwissprotQ8H1251e-176SCL5_ARATH; Scarecrow-like protein 5
SwissprotQ9LDL71e-176PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A2K1L6M10.0A0A2K1L6M1_PHYPA; Uncharacterized protein
STRINGPP1S346_13V6.10.0(Physcomitrella patens)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.21e-179GRAS 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]