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.9NG745400.2.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: 1218aa    MW: 134194 Da    PI: 5.7808
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG745400.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.70.0007911071132123
                           EEET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                           ++C    C++ F ++ +L+ H r+ +
  Pavir.9NG745400.2.p 1107 FQCDidLCDMAFETRAELNAHKRNiC 1132
                           899999****************9877 PP
2zf-C2H212.80.0003511321154323
                           ET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2    3 Cp..dCgksFsrksnLkrHirtH 23  
                           C+   Cgk+Fs++ +LkrH+ +H
  Pavir.9NG745400.2.p 1132 CTdeSCGKRFSSHKYLKRHQCVH 1154
                           77778***************998 PP
3zf-C2H210.70.001711901216123
                           EEET..TTTEEESSHHHHHHHHHH..T CS
              zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                           ykC+   Cg++F+  s++ rH ++  H
  Pavir.9NG745400.2.p 1190 YKCSapSCGQTFRYVSDYSRHRKKfnH 1216
                           99********************98666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005580.0058199IPR003347JmjC domain
PROSITE profilePS5118415.667199IPR003347JmjC domain
SuperFamilySSF511971.76E-102095No hitNo description
PfamPF023733.5E-162982IPR003347JmjC domain
SMARTSM003554811071129IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.19611301159IPR007087Zinc finger, C2H2
SMARTSM003552.311301154IPR015880Zinc finger, C2H2-like
SuperFamilySSF576679.52E-611301167No hitNo description
PROSITE patternPS00028011321154IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.1E-511361160IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.003511601184IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.30211601189IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.6E-911611184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028011621184IPR007087Zinc finger, C2H2
SuperFamilySSF576676.93E-1011701212No hitNo description
Gene3DG3DSA:3.30.160.606.8E-1011851212IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.7911901216IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.15711901217IPR007087Zinc finger, C2H2
PROSITE patternPS00028011921216IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045814Biological Processnegative regulation of gene expression, epigenetic
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0003676Molecular Functionnucleic acid binding
GO:0032452Molecular Functionhistone demethylase activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1218 aa     Download sequence    Send to blast
MVVVCMLWLC SSMCHNFCLL IHAASLAVLG EKTTLMSPNV LVARGVPCCR LVQYPGEFVV  60
TFPRAYHIGF SHGFNCGEAA NFATPQWLKF AKEAAVRRAV MNYLPMLSHQ QLLYLLAASF  120
IIKTPNVLSG IRTSRLRDRR KEERELLVKQ EFLQDMVNEN NLLCSFLKKK SIDNVVLWEP  180
DLLPSSTILN SCSFGSKAPE KKSEDGCRIE SSQCNHKDNS SSDGSALMTG TQTKCMSASN  240
KSSDAASASV EKSDADTDDE DDLPFDLSID SGSLTCVACG ILGYPFMAIL QPSREALEGI  300
SPVHMERYKL SSEKEKSANV LPCCPADSNF GSSFVPDRPS CSVDQPCLAT PAEQAKIAHQ  360
NVKSYKDVCL PENELAGPVQ QHSDSSYYCR SENTLHSCSN REKSDNNIPM DSLGPKLQQT  420
GRCDINVQAV ESCDGTINWN TSSTFARPRI FCLQHALEIE ELFEGKGGVH ALIICHSDYT  480
KLKALAISIA EEIEFQFDCT DVPLANASKS DLHLINISID DEGHEEDGRD WTSQMGLNLK  540
YCAKLRKETS GIQDQAPLSV WGLFSNPSPV SVVPNLKWLC RKARTPYRVI GIISSSSTTT  600
IAGEVKPEMN KEIGTTGNVC EDDNSQHIFQ QNGLLQPSRL HDSDDRDNRP SCSKENDHDI  660
HCLIDIPIAV AEYPLKHQVC EGPVSVSTRN DIICSSDSQD SSPLATSPVD VIRFQGCTQS  720
TELSSSSTFY VQQFLNDEST SVEGSMNCIS NHEYLELQDV TLQCRDECLQ VQQDQEVMGL  780
CNNPHRTSAD PGLKEDLAIS EEKHGDTVSA ALENDEGYAK TSNCSDKTKE SATVNQLQNH  840
DAGAVPVKQK SSFNEITCSA DVQCIITFGC VGSADVPGST QPPSVLHDLM SDELQVDSHH  900
CVVKAIEPES NNSAKHGSLQ IDNLILEDTQ AASTTGIPVH DGQSLHAGSN SFDILLGALA  960
EESKVTDTPG KDEVGKASLT LMTLASNDHF ADEIAEGKIV GVVKTNTTFG ATKDNQQVDR  1020
PHDSCLSDLV SRSIGNSNRT DIIRYVRRKR KRKKDSQSNT DSSHSQNLGS YVRSPCESLR  1080
PRTKPAVVET VEVSAGKKGK RAKVESFQCD IDLCDMAFET RAELNAHKRN ICTDESCGKR  1140
FSSHKYLKRH QCVHSEIRPL KCPWDGCEMT FKWLWAQTEH VRVHTGERPY KCSAPSCGQT  1200
FRYVSDYSRH RKKFNHY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6a57_A2e-451106121622132Lysine-specific demethylase REF6
6a58_A2e-451106121622132Lysine-specific demethylase REF6
6a59_A2e-451106121622132Lysine-specific demethylase REF6
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
110461051RRKRKR
210461052RRKRKRK
310471052RKRKRK
410471053RKRKRKK
510471054RKRKRKKD
610491053RKRKK
710491054RKRKKD
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.205670.0callus| leaf| stem
Functional Description ? help Back to Top
Source Description
UniProtHistone demethylase that demethylates 'Lys-4' (H3K4me) of histone H3. Involved in the control of flowering time. Has a suppressive effect on floral transition under long day conditions through the demethylation of H3K4me3 in the promoter region of the flower-promoting signal HD3B/RFT1. {ECO:0000269|PubMed:24759811}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG745400.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025793314.10.0lysine-specific demethylase SE14
SwissprotQ10RP40.0SE14_ORYSJ; Lysine-specific demethylase SE14
TrEMBLA0A3L6SH780.0A0A3L6SH78_PANMI; Lysine-specific demethylase SE14-like
STRINGPavir.Ia04207.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.15e-58C2H2 family protein