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 Pavir.2KG514600.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family GRAS
Protein Properties Length: 595aa    MW: 64211.9 Da    PI: 6.0085
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2KG514600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS319.38.1e-981875932374
                 GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl.fsevsPi 90 
                           +lLlecA+av+++d +++q+l++ l+elasp+gd  q+la yf+++L arl+ s++++ ++l++ +++++ s +++  + l f+e+sP+
  Pavir.2KG514600.1.p 187 SQLLLECARAVAARDSQRVQQLMWMLNELASPYGDVEQKLANYFLQGLFARLTASGPRTLRTLAAASDRNT-SFDSTRRTALrFQELSPW 275
                          589************************************************************99888744.44444444446******* PP

                 GRAS  91 lkfshltaNqaIleavege.......ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.....skeeleetgerLak 167
                            f+h++aN aIle++ ++       +r Hi+D++ + ++QWp+Ll+aLa+R+ +++p+l iT+v+s++++      ++ ++e+g+r++k
  Pavir.2KG514600.1.p 276 SSFGHVAANGAILESFLEAaaaspepQRFHILDLSNTFCTQWPTLLEALATRSaDDTPHLSITTVVSAAPSaptaaVQRVMREIGQRMEK 365
                          **************998776778889999************************889***********988889999999*********** PP

                 GRAS 168 fAeelgvpfefnvlvak.rledleleeLrvkp...gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nse. 251
                          fA+ +gvpf+f+++++  +l++l+l++L+++      a+aVn+v +l  ++  ++  + +rd++ + +++l P+vv+vve+ead+   + 
  Pavir.2KG514600.1.p 366 FARLMGVPFSFRAVHHAgDLAELDLDALDLRDggaTTAVAVNCVNSLRGVV--PAGGARRRDAFTSSLRRLDPRVVTVVEEEADLvA-Sd 452
                          *************97767**************888889************9..55566668***********************954.44 PP

                 GRAS 252 .............sFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvp 328
                                        Fl+ f e l+++sa +dsle+++p++s+er  +Er+  gr+iv++v+c  +e+ er+et+++W +r+++aGF+pv+
  Pavir.2KG514600.1.p 453 pdasdeaggdtdaAFLKVFGEGLRFFSAYMDSLEESFPKTSNERLALERA-AGRAIVDLVSCPSSESMERRETAASWARRMRSAGFSPVA 541
                          899***********************************************.*************************************** PP

                 GRAS 329 lsekaakqaklllrkvksdgyrveee.......sgslvlgWkdrpLvsvSaWr 374
                          +se++a+++++llr++  +g+++ +         + ++l Wk++pLv++SaWr
  Pavir.2KG514600.1.p 542 FSEDVADDVRSLLRRYR-EGWSMRDAclddsaaGAGVFLAWKEQPLVWASAWR 593
                          *****************.88888844444455355566**************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098551.754160567IPR005202Transcription factor GRAS
PfamPF035142.8E-95187593IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008356Biological Processasymmetric cell division
GO:0009956Biological Processradial pattern formation
GO:0045930Biological Processnegative regulation of mitotic cell cycle
GO:0048366Biological Processleaf development
GO:0055072Biological Processiron ion homeostasis
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 595 aa     Download sequence    Send to blast
MDTLFRLVSL QASEQQQQQS ASYNSRSTTS SGSRSSSHQT NASYNYYNHS NSGGSGGQYY  60
YGQQQHHQHQ HQHQRYYLEP YQHEECGNAH HLYMDEDFSS SSSSRQHLHS HGAAVQPPTS  120
SVATAPTPPL STSSTAAGAA HALFEAADLS FPPDLNLDFS SPASPSGGGA ASSAAVGGGA  180
GGGRWASQLL LECARAVAAR DSQRVQQLMW MLNELASPYG DVEQKLANYF LQGLFARLTA  240
SGPRTLRTLA AASDRNTSFD STRRTALRFQ ELSPWSSFGH VAANGAILES FLEAAAASPE  300
PQRFHILDLS NTFCTQWPTL LEALATRSAD DTPHLSITTV VSAAPSAPTA AVQRVMREIG  360
QRMEKFARLM GVPFSFRAVH HAGDLAELDL DALDLRDGGA TTAVAVNCVN SLRGVVPAGG  420
ARRRDAFTSS LRRLDPRVVT VVEEEADLVA SDPDASDEAG GDTDAAFLKV FGEGLRFFSA  480
YMDSLEESFP KTSNERLALE RAAGRAIVDL VSCPSSESME RRETAASWAR RMRSAGFSPV  540
AFSEDVADDV RSLLRRYREG WSMRDACLDD SAAGAGVFLA WKEQPLVWAS AWRP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B1e-16115959469474Protein SHORT-ROOT
5b3h_B1e-16215959415420Protein SHORT-ROOT
5b3h_E1e-16215959415420Protein SHORT-ROOT
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.82640.0callus| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In P3 leaf primordium, expressed ubiquitously in the L1 layer and in the inner cells at lower levels. Not limited to the developing stomata until the last cell divisions. {ECO:0000269|PubMed:12974810}.
UniprotTISSUE SPECIFICITY: Expressed in leaves and roots. Detected in the stele, the endodermis and part of the cortex. {ECO:0000269|PubMed:12974810, ECO:0000269|PubMed:17446396}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor required for the asymmetric cell division involved in radial pattern formation in roots. Essential for both cell division and cell specification. {ECO:0000269|PubMed:17446396}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2KG514600.1.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
GenBankBT0673280.0BT067328.1 Zea mays full-length cDNA clone ZM_BFc0012E13 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004958171.10.0protein SHORT-ROOT 1
SwissprotQ8H2X80.0SHR1_ORYSJ; Protein SHORT-ROOT 1
TrEMBLK3ZRR60.0K3ZRR6_SETIT; Uncharacterized protein
STRINGPavir.Bb01182.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP35263781
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37650.11e-134GRAS family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]