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.9NG271400.1.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: 1340aa    MW: 148205 Da    PI: 9.1911
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG271400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.20.001113041330123
                           EEET..TTTEEESSHHHHHHHHHH..T CS
              zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                           y+Cp   C ++F+  s++ rH r+  H
  Pavir.9NG271400.1.p 1304 YVCPepGCEQTFRFVSDFSRHKRRtgH 1330
                           99********************98666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005455.1E-141859IPR003349JmjN domain
PROSITE profilePS5118313.5361960IPR003349JmjN domain
PfamPF023752.1E-122053IPR003349JmjN domain
SMARTSM005583.4E-46184353IPR003347JmjC domain
PROSITE profilePS5118435.076187353IPR003347JmjC domain
SuperFamilySSF511976.32E-25200351No hitNo description
PfamPF023731.3E-36217335IPR003347JmjC domain
Gene3DG3DSA:3.30.160.604.5E-412141243IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003551412211243IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.90512441273IPR007087Zinc finger, C2H2
SMARTSM003551.112441268IPR015880Zinc finger, C2H2-like
SuperFamilySSF576674.63E-512461280No hitNo description
PROSITE patternPS00028012461268IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.609.1E-412461272IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
Gene3DG3DSA:3.30.160.601.7E-912731298IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.7E-412741298IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.71812741303IPR007087Zinc finger, C2H2
PROSITE patternPS00028012761298IPR007087Zinc finger, C2H2
SuperFamilySSF576675.89E-1012841328No hitNo description
Gene3DG3DSA:3.30.160.602.2E-1012991326IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.1713041330IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.36713041335IPR007087Zinc finger, C2H2
PROSITE patternPS00028013061330IPR007087Zinc 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: 1340 aa     Download sequence    Send to blast
MPSAQGELVP PWLRSLPLAP EFRPTAAEFA DPVAYLLKIE PAAAPFGICK VIPPLPPPPK  60
RTTLGNLSRS FAALHPGDPS PTFPTRHQEL GLCPRRPRPA LKPVWHSSRR YTLPQFEAAA  120
GVSRKALLAR LGVAASRQLS PLDVEALFWR STADRPVTVE YASDMPGSGF APCDARPTQL  180
PAAHVGETAW NMRGVARSPA SLLRFLREEV PGVTSPMLYV AMMFSWFAWH VEDHDLHSLN  240
YLHSGAPKTW YGVPRDAALA FEDAVRVHGY GGEVNPLETF AMLGDKTTVM SPEVLVRSGI  300
PCCRLVQNAG EFVVTFPGSY HSGFSHGFNY AEASNMATPE WLRVAKEAAV RRASINRPPM  360
VSHYQLLYEL ALSMCLRDPS SGAVEPRSSR LKEKKKGEGE QLVKKIFVQN VIEDNKLLNH  420
FLRDGSSCII LPTSPNDGSA LSTLLSKSQS TTKSRISDCH CNITEAPKDS RCLPVNGLLG  480
KNGELSSSKE LSTSVCSGEK FLPTACMHDC VNMSGSSDAN NAESDKGDIN STAGLLDQGF  540
LSCVTCGILS FSCVAVIKPR ECAAKWLMSA DSSLINKQFA DSGESHLIDA LQSATTNSGI  600
LRSGFEMDGN RTSSGAAALN RNSALDLLAS AYGDPSDSDE DVLNKKNQVA NVSSELISRT  660
IQSQPNNIST IGGCDGTNLS SSSKEHQQGP SSQRSQCIGN NNNGPKGVRT RNKYQLKMVL  720
SEGFQPKDKY SEIQKKVQCE PLSSNKASTE QLRGTDCQAG HNSATICMDS NTSTTTRVDN  780
LATSIVKPDK DSSRMHVFCL EHAIEVEKQL QTIGGAHIFL LCRPEYPKIE VEAKLLAEEV  840
EVEYDWKDIR FKETSIEDRK KMREVVQDEE TIPTNSDWAV KMGINLYYSA NLAKSPLYNK  900
QLPYNRVIYK AFGCSSPNNS PVKLKTYSRR QGRAKKIVLA GRWCGKVWMS NQVHPYLAHR  960
IKSHEPDEIN EICSSVQKSN SEHVEKSSRE ATCTRKSNSR AIEEKTSKRE EEPLEKANAN  1020
TPKHSEEDNS KALEGAAEAS AIKSSSRTVV EETSKRKKEP LEKANTKKPK HTEEENSKAL  1080
KGASEASHPS PSRMVIRSSS RIANRKNMLK SKMEEKDNDP ANRPKAMVEE DGNDPASCSR  1140
ARPLRQKTNT DVKKQTKKPR AEKQKAPSPT ALEDEDKELS FTKQQLSSRK QKTKVEEKQQ  1200
MKKTRENKGA PPSSPKQGEE YACNIEGCSM SFGTKQELSL HKRDICPVKG CGRKFFSHKY  1260
LLQHRKVHND DRPLKCSWKG CDMAFKWPWA RTEHMRVHTG DRPYVCPEPG CEQTFRFVSD  1320
FSRHKRRTGH AAKKAKTKK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A5e-71123748353Transcription factor jumonji (Jmj) family protein
6ip4_A5e-71123748353Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
110541069KRKKEPLEKANTKKPK
213241338KRRTGHAAKKAKTKK
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.9NG271400.1.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.Ea03512.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP53463246
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48430.10.0relative 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]