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.3KG329000.1.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: 450aa    MW: 49880.9 Da    PI: 4.7191
Description HSF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG329000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HSF_DNA-bind111.17.6e-35241152102
                          HHHHHHHHHCTGGGTTTSEESSSSSEEEES-HHHHHHHTHHHHSTT--HHHHHHHHHHTTEEE---SSBTTTTXTTSEEEEESXXXXXXX CS
         HSF_DNA-bind   2 FlkklyeiledeelkeliswsengnsfvvldeeefakkvLpkyFkhsnfaSFvRQLnmYgFkkvkdeekkskskekiweFkhksFkkgkk 91 
                          Fl k+ye++ed+++++++sw   g sfvv+++ +f++++LpkyFkh+nf+SF+RQLn+YgF+k++ e+         weF+++ F +g++
  Pavir.3KG329000.1.p  24 FLIKTYEMVEDPATNHVVSWGPGGASFVVWNPPDFSRDLLPKYFKHNNFSSFIRQLNTYGFRKIDPER---------WEFANEDFIRGHT 104
                          9****************************************************************999.........************* PP

                          XXXXXXXXXXX CS
         HSF_DNA-bind  92 ellekikrkks 102
                          +ll++i+r+k 
  Pavir.3KG329000.1.p 105 HLLKNIHRRKP 115
                          ********985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF467853.67E-3620113IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM004159.9E-6320113IPR000232Heat shock factor (HSF)-type, DNA-binding
Gene3DG3DSA:1.10.10.107.4E-3920113IPR011991Winged helix-turn-helix DNA-binding domain
PRINTSPR000568.0E-202447IPR000232Heat shock factor (HSF)-type, DNA-binding
PfamPF004476.6E-3124113IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000568.0E-206274IPR000232Heat shock factor (HSF)-type, DNA-binding
PROSITE patternPS0043406387IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000568.0E-207587IPR000232Heat shock factor (HSF)-type, DNA-binding
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000302Biological Processresponse to reactive oxygen species
GO:0010200Biological Processresponse to chitin
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 450 aa     Download sequence    Send to blast
MEGSSGGAGG GGGGGGGSGS PPPFLIKTYE MVEDPATNHV VSWGPGGASF VVWNPPDFSR  60
DLLPKYFKHN NFSSFIRQLN TYGFRKIDPE RWEFANEDFI RGHTHLLKNI HRRKPVHSHS  120
LQNQVNGPLA EAERRELEDE INRLKYEKSL LLADLQRQNQ QQYGISWQMQ SLEDRLVQME  180
QRQRNIVASL CDILKRHRVV SASMLETDHF SKKRRVPKID FFVDEPTVKE QQVPFLQTLG  240
AEAPSMSPGH LLNAEPFEKM ELALVSLENF FQRASHGSAE EMYGGVAETS PDLTLGEMNS  300
APMDTNINQQ SSAGLSPFSS TTEQAQFPSS LADSLSYAPS PVLTLSDINE DANRKAEADM  360
NSETTTGDTS QETTSETEGP HNDVFWERFL TGEAESGRQH ADVKSEATED IKIAIDWSNL  420
NHQNNVDQIT EKMGHLDSAE NGSNATGND*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5d5u_B4e-251211317129Heat shock factor protein 1
5d5v_B4e-251211317129Heat shock factor protein 1
5d5v_D4e-251211317129Heat shock factor protein 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1417SGGAGGGGGGGGGS
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Hardly expressed in young leaves at 14 days after sowing (DAS). Expression detected in adult leaves at 28 DAS and increases with growing stage. {ECO:0000269|PubMed:12032317}.
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
MP00443DAPTransfer from AT4G18880Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG329000.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By heat stress. {ECO:0000269|PubMed:12032317}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025810280.10.0heat stress transcription factor A-4d-like
RefseqXP_025810281.10.0heat stress transcription factor A-4d-like
SwissprotQ93VB51e-175HFA4D_ORYSJ; Heat stress transcription factor A-4d
TrEMBLA0A2T7EB590.0A0A2T7EB59_9POAL; Uncharacterized protein
STRINGPavir.Ca01519.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP32963778
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18880.12e-71heat shock transcription factor A4A
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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Kojo K, et al.
    Regulatory mechanisms of ROI generation are affected by rice spl mutations.
    Plant Cell Physiol., 2006. 47(8): p. 1035-44
    [PMID:16816407]