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 KN543524.1_FGP001
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family GRAS
Protein Properties Length: 321aa    MW: 34915.8 Da    PI: 7.0181
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN543524.1_FGP001genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS351.41.4e-107131449374
               GRAS  49 Laarlarsvselykal.ppsetseknsseelaalklfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegp 139
                        ++arl++s+ +ly+ l +ps++  + + +++aa+++f+ +sP++kfsh+taNqaI ea+e+eervHiiD+di+qGlQWp L++ LasRp+gp
  KN543524.1_FGP001   1 MSARLVSSCLGLYAPLpSPSPAGARVHGRVAAAFQVFNGISPFVKFSHFTANQAIQEAFEREERVHIIDLDIMQGLQWPGLFHILASRPGGP 92 
                        5799************55555555558899999*********************************************************** PP

               GRAS 140 pslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklv 231
                        p++R+Tg+g+    s e+le+tg+rL++fA++lg+pfef + va++  +l++e+L v ++Ea+aV++    h+l+d ++s ++    +L+l+
  KN543524.1_FGP001  93 PRVRLTGLGA----SMEALEATGKRLSDFADTLGLPFEFCP-VADKAGNLDPEKLGVTRREAVAVHWLR--HSLYDVTGSDSN----TLWLI 173
                        **********....***************************.7************************99..999999999999....***** PP

               GRAS 232 kslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaG 323
                        ++l Pkvv++veq+++h s+sFl+rf+ea++yysalfdsl+a+++++s er++vE++ll+rei+nv+a  g +r+ + + +++Wre+l ++G
  KN543524.1_FGP001 174 QRLAPKVVTMVEQDLSH-SGSFLARFVEAIHYYSALFDSLDASYSEDSPERHVVEQQLLSREIRNVLAVGGPARTGDVK-FGSWREKLAQSG 263
                        *****************.899****************************************************999987.************ PP

               GRAS 324 FkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                        F+  +l  +aa+qa lll +++sdgy++ ee+g+l lgWkd  L+++SaWr
  KN543524.1_FGP001 264 FRVSSLAGSAAAQAALLLGMFPSDGYTLIEENGALKLGWKDLCLLTASAWR 314
                        **************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098552.1321294IPR005202Transcription factor GRAS
PfamPF035144.8E-1051314IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008356Biological Processasymmetric cell division
GO:0009630Biological Processgravitropism
GO:0009956Biological Processradial pattern formation
GO:0048366Biological Processleaf development
GO:0051457Biological Processmaintenance of protein location in nucleus
GO:0090610Biological Processbundle sheath cell fate specification
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 321 aa     Download sequence    Send to blast
MSARLVSSCL GLYAPLPSPS PAGARVHGRV AAAFQVFNGI SPFVKFSHFT ANQAIQEAFE  60
REERVHIIDL DIMQGLQWPG LFHILASRPG GPPRVRLTGL GASMEALEAT GKRLSDFADT  120
LGLPFEFCPV ADKAGNLDPE KLGVTRREAV AVHWLRHSLY DVTGSDSNTL WLIQRLAPKV  180
VTMVEQDLSH SGSFLARFVE AIHYYSALFD SLDASYSEDS PERHVVEQQL LSREIRNVLA  240
VGGPARTGDV KFGSWREKLA QSGFRVSSLA GSAAAQAALL LGMFPSDGYT LIEENGALKL  300
GWKDLCLLTA SAWRPIQASG R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A0.0131567380Protein SCARECROW
5b3h_A0.0131566379Protein SCARECROW
5b3h_D0.0131566379Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in asmmetric cell division in the cortex/endodermis progenitor cell and in the process of stomata and ligule formation in leaves. {ECO:0000250}.
UniProtProbable transcription factor involved in asmmetric cell division in the cortex/endodermis progenitor cell and in the process of stomata and ligule formation in leaves. {ECO:0000269|PubMed:12974810}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN543524.1_FGP001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2431310.0AK243131.1 Oryza sativa Japonica Group cDNA, clone: J100030A12, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620600.10.0protein SCARECROW 2
SwissprotA2ZHL00.0SCR2_ORYSI; Protein SCARECROW 2
SwissprotQ2QYF30.0SCR2_ORYSJ; Protein SCARECROW 2
TrEMBLA0A0D3HQT40.0A0A0D3HQT4_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0BEQ60.0A0A0E0BEQ6_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0RD240.0A0A0E0RD24_ORYRU; Uncharacterized protein
STRINGOGLUM11G01180.10.0(Oryza glumipatula)
STRINGORUFI12G01460.10.0(Oryza rufipogon)
STRINGOS12T0122000-010.0(Oryza sativa)
STRINGOBART12G01190.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP137138122
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54220.11e-172GRAS family protein
Publications ? help Back to Top
  1. Kamiya N, et al.
    Rice globular embryo 4 (gle4) mutant is defective in radial pattern formation during embryogenesis.
    Plant Cell Physiol., 2003. 44(9): p. 875-83
    [PMID:14519768]
  2. Lim J, et al.
    Conservation and diversification of SCARECROW in maize.
    Plant Mol. Biol., 2005. 59(4): p. 619-30
    [PMID:16244911]
  3. Kaur P, et al.
    Genes controlling plant growth habit in Leymus (Triticeae): maize barren stalk1 (ba1), rice lax panicle, and wheat tiller inhibition (tin3) genes as possible candidates.
    Funct. Integr. Genomics, 2008. 8(4): p. 375-86
    [PMID:18543009]
  4. Sazuka T, et al.
    A rice tryptophan deficient dwarf mutant, tdd1, contains a reduced level of indole acetic acid and develops abnormal flowers and organless embryos.
    Plant J., 2009. 60(2): p. 227-41
    [PMID:19682283]
  5. Fan T, et al.
    Rice osa-miR171c Mediates Phase Change from Vegetative to Reproductive Development and Shoot Apical Meristem Maintenance by Repressing Four OsHAM Transcription Factors.
    PLoS ONE, 2015. 10(5): p. e0125833
    [PMID:26023934]
  6. Yi J, et al.
    OsMPK6 plays a critical role in cell differentiation during early embryogenesis in Oryza sativa.
    J. Exp. Bot., 2016. 67(8): p. 2425-37
    [PMID:26912801]
  7. Li S, et al.
    Crystal Structure of the GRAS Domain of SCARECROW-LIKE7 in Oryza sativa.
    Plant Cell, 2016. 28(5): p. 1025-34
    [PMID:27081181]