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.6NG243500.1.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 C2H2
Protein Properties Length: 499aa    MW: 52793.3 Da    PI: 8.905
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6NG243500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.31.4e-056789123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y+C++Cg+ F r  n++ H r+H
  Pavir.6NG243500.1.p 67 YVCEICGQGFQRDQNMQMHRRRH 89
                         9*********************9 PP
2zf-C2H211.60.00085146167223
                          EETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   2 kCpdCgksFsrksnLkrHirtH 23 
                           C  C+k +  +s++k H++t+
  Pavir.6NG243500.1.p 146 ACARCSKAYAVHSDYKAHLKTC 167
                          6*******************98 PP
3zf-C2H210.80.0015175193523
                          TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                          dCg++Fsr +++  H+ t+
  Pavir.6NG243500.1.p 175 DCGRVFSRVESFIEHQDTC 193
                          9***************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.5E-56689IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00566789IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.1156789IPR007087Zinc finger, C2H2
SuperFamilySSF576676.77E-56789No hitNo description
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SMARTSM00355110109139IPR015880Zinc finger, C2H2-like
SMARTSM00355230145172IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009630Biological Processgravitropism
GO:0009965Biological Processleaf morphogenesis
GO:0010601Biological Processpositive regulation of auxin biosynthetic process
GO:0048444Biological Processfloral organ morphogenesis
GO:2000012Biological Processregulation of auxin polar transport
GO:2000904Biological Processregulation of starch metabolic process
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043621Molecular Functionprotein self-association
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 499 aa     Download sequence    Send to blast
MLSSCAPTAL PPPEAGAAPP EPFRSLQMAT TSAAAGAKKK RRPAGTPDPD AEVVSLSPRT  60
LLESDRYVCE ICGQGFQRDQ NMQMHRRRHK VPWKLLKREA GEAARKRVFV CPEPSCLHHD  120
PSHALGDLVG IKKHFRRKHS GHRQWACARC SKAYAVHSDY KAHLKTCGTR GHTCDCGRVF  180
SRVESFIEHQ DTCNAGRQRA ETSSSPASGG GGAAGFGVAA ASTSRQQRRQ MHATAAAALS  240
RTASSASPSS CGGGGDLGGS PVAWPPGAAM ASPTAAAFHR FDPALSSPPT PHDRPGAHSL  300
ELQLMPPRGS CGAPAAAVGC CAAQHSPAVA TSPHLGADPM RLQLSIGFGG GARDDSEMSA  360
AAARLKDEAR EQLRLAMAEK AAADDARAQV RRQAELAEQE LASARRVRQQ AQAELGRAHA  420
LRDHAVRQVD ATLLQVTCYS CRCKFRARAA GAMSSEVASY VSSVVTEGGD AEVDDHHHRQ  480
LNADDAPSHA HARMMDLN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-16141205367Zinc finger protein JACKDAW
5b3h_F1e-16141205367Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13741KKKRR
23742KKKRRP
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.281863e-63root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cotyledons and the vasculature of reosette leaves. Weak expression in hypocotyls and floral organs, but not detected in roots and inflorescence stems. {ECO:0000269|PubMed:24039602}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor regulating starch metabolism by binding directly to the promoter of QQS (PubMed:21556057). The IDD14beta isoform attenuates the transcription factor activity by competitively forming heterodimers with reduced DNA-binding capacity(PubMed:21556057). Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Has a redundant role with IDD16 in directing leaf and floral organ morphogenesis (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:21556057, ECO:0000269|PubMed:24039602}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6NG243500.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1067960.0AK106796.1 Oryza sativa Japonica Group cDNA clone:002-116-B04, full insert sequence.
GenBankAK1195950.0AK119595.1 Oryza sativa Japonica Group cDNA clone:002-117-D09, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025821510.10.0protein indeterminate-domain 16-like
SwissprotQ9C9X71e-129IDD14_ARATH; Protein indeterminate-domain 14
TrEMBLA0A2T7D8940.0A0A2T7D894_9POAL; Uncharacterized protein
STRINGPavir.Fb01741.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP105138124
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68130.12e-96indeterminate(ID)-domain 14
Publications ? help Back to Top
  1. Arendsee ZW,Li L,Wurtele ES
    Coming of age: orphan genes in plants.
    Trends Plant Sci., 2014. 19(11): p. 698-708
    [PMID:25151064]
  2. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]