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.9NG271400.2.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: 1005aa    MW: 111651 Da    PI: 9.3504
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG271400.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H210.90.0014911933323
                          ET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   3 Cp..dCgksFsrksnLkrHirtH 23 
                          Cp   Cg+ F ++ +L +H ++H
  Pavir.9NG271400.2.p 911 CPvkGCGRKFFSHKYLLQHRKVH 933
                          9999*****************99 PP
2zf-C2H211.70.00082969995123
                          EEET..TTTEEESSHHHHHHHHHH..T CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt..H 23 
                          y+Cp   C ++F+  s++ rH r+  H
  Pavir.9NG271400.2.p 969 YVCPepGCEQTFRFVSDFSRHKRRtgH 995
                          99********************98666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.3E-4879908IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035514886908IPR015880Zinc finger, C2H2-like
SMARTSM003551.1909933IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.905909938IPR007087Zinc finger, C2H2
SuperFamilySSF576672.89E-5910945No hitNo description
PROSITE patternPS000280911933IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.6E-4911937IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
Gene3DG3DSA:3.30.160.601.2E-9938962IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.7E-4939963IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.718939968IPR007087Zinc finger, C2H2
PROSITE patternPS000280941963IPR007087Zinc finger, C2H2
SuperFamilySSF576674.82E-10949993No hitNo description
Gene3DG3DSA:3.30.160.601.5E-10963991IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.17969995IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.3679691000IPR007087Zinc finger, C2H2
PROSITE patternPS000280971995IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0035067Biological Processnegative regulation of histone acetylation
GO:0040010Biological Processpositive regulation of growth rate
GO:0045815Biological Processpositive regulation of gene expression, epigenetic
GO:0048366Biological Processleaf development
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
GO:0071558Molecular Functionhistone demethylase activity (H3-K27 specific)
Sequence ? help Back to Top
Protein Sequence    Length: 1005 aa     Download sequence    Send to blast
MATPEWLRVA KEAAVRRASI NRPPMVSHYQ LLYELALSMC LRDPSSGAVE PRSSRLKEKK  60
KGEGEQLVKK IFVQNVIEDN KLLNHFLRDG SSCIILPTSP NDGSALSTLL SKSQSTTKSR  120
ISDCHCNITE APKDSRCLPV NGLLGKNGEL SSSKELSTSV CSGEKFLPTA CMHDCVNMSG  180
SSDANNAESD KGDINSTAGL LDQGFLSCVT CGILSFSCVA VIKPRECAAK WLMSADSSLI  240
NKQFADSGES HLIDALQSAT TNSGILRSGF EMDGNRTSSG AAALNRNSAL DLLASAYGDP  300
SDSDEDVLNK KNQVANVSSE LISRTIQSQP NNISTIGGCD GTNLSSSSKE HQQGPSSQRS  360
QCIGNNNNGP KGVRTRNKYQ LKMVLSEGFQ PKDKYSEIQK KVQCEPLSSN KASTEQLRGT  420
DCQAGHNSAT ICMDSNTSTT TRVDNLATSI VKPDKDSSRM HVFCLEHAIE VEKQLQTIGG  480
AHIFLLCRPE YPKIEVEAKL LAEEVEVEYD WKDIRFKETS IEDRKKMREV VQDEETIPTN  540
SDWAVKMGIN LYYSANLAKS PLYNKQLPYN RVIYKAFGCS SPNNSPVKLK TYSRRQGRAK  600
KIVLAGRWCG KVWMSNQVHP YLAHRIKSHE PDEINEICSS VQKSNSEHVE KSSREATCTR  660
KSNSRAIEEK TSKREEEPLE KANANTPKHS EEDNSKALEG AAEASAIKSS SRTVVEETSK  720
RKKEPLEKAN TKKPKHTEEE NSKALKGASE ASHPSPSRMV IRSSSRIANR KNMLKSKMEE  780
KDNDPANRPK AMVEEDGNDP ASCSRARPLR QKTNTDVKKQ TKKPRAEKQK APSPTALEDE  840
DKELSFTKQQ LSSRKQKTKV EEKQQMKKTR ENKGAPPSSP KQGEEYACNI EGCSMSFGTK  900
QELSLHKRDI CPVKGCGRKF FSHKYLLQHR KVHNDDRPLK CSWKGCDMAF KWPWARTEHM  960
RVHTGDRPYV CPEPGCEQTF RFVSDFSRHK RRTGHAAKKA KTKK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6a57_A2e-6088699923136Lysine-specific demethylase REF6
6a58_A2e-6088699923136Lysine-specific demethylase REF6
6a59_A2e-6088699923136Lysine-specific demethylase REF6
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1719734KRKKEPLEKANTKKPK
29891003KRRTGHAAKKAKTKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.263610.0callus
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves and flag leaves. Expressed at low levels in roots, shoots, stems and panicles. {ECO:0000269|PubMed:24280387}.
Functional Description ? help Back to Top
Source Description
UniProtHistone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3 with a specific activity for H3K27me3 and H3K27me2. No activity on H3K4me3, H3K9me3, H3K27me1 and H3K36me3. Involved in biotic stress response. May demethylate H3K27me3-marked defense-related genes and increase their basal and induced expression levels during pathogen infection. {ECO:0000269|PubMed:24280387}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00608ChIP-seqTransfer from AT3G48430Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG271400.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By salt stress, abscisic acid (ABA), jasmonic acid (JA), the ethylene precursor ACC and infection by the bacterial pathogen Xanthomonas oryzae pv. oryzae. {ECO:0000269|PubMed:24280387}.
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_025815151.10.0lysine-specific demethylase JMJ705-like
SwissprotQ5N7120.0JM705_ORYSJ; Lysine-specific demethylase JMJ705
TrEMBLA0A3L6SIW80.0A0A3L6SIW8_PANMI; Uncharacterized protein
STRINGPavir.J31927.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48430.13e-51relative of early flowering 6
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]