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.5NG480100.1.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 HSF
Protein Properties Length: 271aa    MW: 29201.2 Da    PI: 9.4579
Description HSF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG480100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HSF_DNA-bind104.59.1e-33401322103
                          HHHHHHHHHCTGGGTTTSEESSSSSEEEES-HHHHHHHTHHHHSTT--HHHHHHHHHHTTEEE---SSBTTTTXTTSEEEEESXXXXXXX CS
         HSF_DNA-bind   2 FlkklyeiledeelkeliswsengnsfvvldeeefakkvLpkyFkhsnfaSFvRQLnmYgFkkvkdeekkskskekiweFkhksFkkgkk 91 
                          F+ k++++++d++++ ++sw   +nsf+v+d+  f++ +Lp+yFkh+nfaSFvRQLn+YgF+kv++++         weF+h+sF +g+ 
  Pavir.5NG480100.1.p  40 FVAKTFHMVSDPATDAVVSWGGASNSFLVVDPAAFSDYLLPSYFKHRNFASFVRQLNTYGFRKVDTDR---------WEFAHESFLRGQA 120
                          9********************999******************************************99.........************* PP

                          XXXXXXXXXXXX CS
         HSF_DNA-bind  92 ellekikrkkse 103
                          +ll  i rkk++
  Pavir.5NG480100.1.p 121 HLLPLIVRKKKK 132
                          *********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512575118No hitNo description
Gene3DG3DSA:1.10.10.108.6E-3630123IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM004152.1E-4836129IPR000232Heat shock factor (HSF)-type, DNA-binding
SuperFamilySSF467852.58E-3136129IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF004472.4E-2840129IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000564.9E-174063IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000564.9E-177890IPR000232Heat shock factor (HSF)-type, DNA-binding
PROSITE patternPS00434079103IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000564.9E-1791103IPR000232Heat shock factor (HSF)-type, DNA-binding
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0006970Biological Processresponse to osmotic stress
GO:0009737Biological Processresponse to abscisic acid
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 271 aa     Download sequence    Send to blast
MGSECKDHLQ LHAGFGGCGG GAQQPQQRQH HEEAVAVAPF VAKTFHMVSD PATDAVVSWG  60
GASNSFLVVD PAAFSDYLLP SYFKHRNFAS FVRQLNTYGF RKVDTDRWEF AHESFLRGQA  120
HLLPLIVRKK KKAGGRELGK EGEEVRGTIR AVQRLREEQR SMEEELRAMD RRLRAAESRP  180
GQMMAFLAKL ADDPGVVLRA MLAKEEELAA AGKGAPPPPL PAVEAPGKRR RVGAGAGAEA  240
AVAGDAAAEL AAQGRGAVPF PFSVLGQVFY *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5d5u_B3e-253712926129Heat shock factor protein 1
5d5v_B3e-253712926129Heat shock factor protein 1
5d5v_D3e-253712926129Heat shock factor protein 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1227231KRRRV
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator that specifically binds DNA of heat shock promoter elements (HSE). {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00379DAPTransfer from AT3G24520Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG480100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9540420.0EU954042.1 Zea mays clone 1452946 heat shock factor protein HSF30 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021311267.11e-138heat stress transcription factor C-1b
SwissprotQ942D61e-127HFC1B_ORYSJ; Heat stress transcription factor C-1b
TrEMBLA0A1B6Q5W31e-137A0A1B6Q5W3_SORBI; Uncharacterized protein
STRINGPavir.J32219.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP112983141
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24520.17e-65heat shock transcription factor C1
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]
  2. Schmidt R, et al.
    Transcription factor OsHsfC1b regulates salt tolerance and development in Oryza sativa ssp. japonica.
    AoB Plants, 2012. 2012: p. pls011
    [PMID:22616023]