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 Pahal.J00664.1
Organism
Panicum hallii
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: 640aa    MW: 68549.1 Da    PI: 6.4823
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.J00664.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS311.71.7e-952296382374
            GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl.fsevsPilkfsh 95 
                      +lLlecA+av+++d +++q+l++ l+elasp+gd  q+la+yf+++L arl+ s++++ ++l++ ++++  s e++  + l f+e+sP+  f+h
  Pahal.J00664.1 229 AQLLLECARAVAARDSQRVQQLMWMLNELASPYGDVDQKLASYFLQGLFARLTTSGPRTLRTLAAASDRN-ASFESTRRTALkFQELSPWTSFGH 322
                     589************************************************************9888874.444444444446************ PP

            GRAS  96 ltaNqaIleavege...............ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg...skeeleetgerLakfAee 171
                     ++aN aIle++ ++                r+Hi+D++ + ++QWp+Ll+aLa+R+ +++p+l iT+v++ ++     ++ ++e+++rL+kfA+ 
  Pahal.J00664.1 323 VAANGAILESFLEAaagasssssssssqpPRLHILDLSNTFCTQWPTLLEALATRSsDDTPHLSITTVVPTAAPsaaAQRVMREIAQRLEKFARL 417
                     ********998665556677777777777799************************8889********996655788999*************** PP

            GRAS 172 lgvpfefnvlvak.rledleleeLrvkp...gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nse.......... 251
                     +gvpf+f+++++  +l++l+l+ L++++     ala+n+v +l  +   ++  +  rd+++  +++l+P+vv+vve++ad+  se          
  Pahal.J00664.1 418 MGVPFSFRTVHHAgDLAELDLDGLDLREggaTTALAINCVNALRGVA--PGGARR-RDAFVASLRRLEPRVVTVVEEDADLvASEsdasseeant 509
                     *********97767**************888889************8..555555.9*********************9996555899999**** PP

            GRAS 252 ..sFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkv 344
                        F++ f+e l+++sa +dsle+++p++s+er  +Er+  gr+iv++v+c  +e+ er+et ++W +r+++aGF+pv++s+++a+++++llr++
  Pahal.J00664.1 510 daAFMKVFTEGLRFFSAYMDSLEESFPKTSNERLALERA-AGRAIVDLVSCPASESAERRETGASWARRMRSAGFSPVAFSDDVADDVRSLLRRY 603
                     99*************************************.******************************************************* PP

            GRAS 345 ksdgyrveee......sgslvlgWkdrpLvsvSaWr 374
                       +g++++e        + ++l Wk++p+v++SaWr
  Pahal.J00664.1 604 R-EGWTLQEPgtddsaAAGVFLAWKEQPVVWTSAWR 638
                     9.99****6666666577788**************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098551.409202613IPR005202Transcription factor GRAS
PfamPF035145.7E-93229638IPR005202Transcription 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: 640 aa     Download sequence    Send to blast
MDTLFRLVSL HQHHHHHPQA PPAPSSPDQH HHHHHHQSPY SSRSTSRSTT STGSRSSPAS  60
HHTHTHHYYP HSHSHYNNSS NSSGSYYYYY DPAAGAGGGG GGYYYDHHQP APYQEECGND  120
HGFYMDEDFS SSSSSRHFHH QPSSAAPPAA PANPPPASSP APTPPQPPPA QSSAGGHGGL  180
FEAADFSFPQ VDIDLDFSSP ASSSGAAGGS GTAAASASSG GGGAGRWAAQ LLLECARAVA  240
ARDSQRVQQL MWMLNELASP YGDVDQKLAS YFLQGLFARL TTSGPRTLRT LAAASDRNAS  300
FESTRRTALK FQELSPWTSF GHVAANGAIL ESFLEAAAGA SSSSSSSSSQ PPRLHILDLS  360
NTFCTQWPTL LEALATRSSD DTPHLSITTV VPTAAPSAAA QRVMREIAQR LEKFARLMGV  420
PFSFRTVHHA GDLAELDLDG LDLREGGATT ALAINCVNAL RGVAPGGARR RDAFVASLRR  480
LEPRVVTVVE EDADLVASES DASSEEANTD AAFMKVFTEG LRFFSAYMDS LEESFPKTSN  540
ERLALERAAG RAIVDLVSCP ASESAERRET GASWARRMRS AGFSPVAFSD DVADDVRSLL  600
RRYREGWTLQ EPGTDDSAAA GVFLAWKEQP VVWTSAWRP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B1e-15922663985474Protein SHORT-ROOT
5b3h_B1e-16022663931420Protein SHORT-ROOT
5b3h_E1e-16022663931420Protein SHORT-ROOT
Search in ModeBase
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 (By similarity). {ECO:0000250}.
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7270150.0KJ727015.1 Zea mays clone pUT3996 GRAS transcription factor (GRAS58) gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796633.10.0protein SHORT-ROOT 2-like
SwissprotA2YN560.0SHR1_ORYSI; Protein SHORT-ROOT 1
SwissprotQ8H2X80.0SHR1_ORYSJ; Protein SHORT-ROOT 1
TrEMBLA0A2S3IPI40.0A0A2S3IPI4_9POAL; Uncharacterized protein
STRINGPavir.Ia02979.1.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-127GRAS 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]