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.3NG175100.3.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 C3H
Protein Properties Length: 402aa    MW: 43203 Da    PI: 6.4294
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3NG175100.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH35.31.9e-1198123126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++++ C++++++GtC++G +CkF+H+
  Pavir.3NG175100.3.p  98 PGEPDCSYYLKFGTCRFGIKCKFNHP 123
                          5789*********************8 PP
2zf-CCCH25.91.7e-08250271425
                          ---SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaH 25 
                          e+C++++  G Ck+G  Ck+ H
  Pavir.3NG175100.3.p 250 EECKYYSTPGGCKFGTACKYLH 271
                          89******************** PP
3zf-CCCH33.76e-11296320226
                          -S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                          ++++C+f++rtG Ck+  +CkF+H+
  Pavir.3NG175100.3.p 296 GEKECPFYMRTGSCKFATNCKFHHP 320
                          7899********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.89697125IPR000571Zinc finger, CCCH-type
SMARTSM003564.5E-597124IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-899123IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.63E-5102125IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.343246274IPR000571Zinc finger, CCCH-type
SMARTSM003560.0025246273IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.59E-5250274IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-5250271IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-4252273IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.896294322IPR000571Zinc finger, CCCH-type
SMARTSM003561.9E-5294321IPR000571Zinc finger, CCCH-type
PfamPF006429.7E-8296320IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.63E-6297321IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.0E-4300319IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 402 aa     Download sequence    Send to blast
MADAEANTQP PDAAESPIAS LSPSSVGAAD ADAIEKQLAG LGIAVAGGGG FPEPSGWDDV  60
PVPVAVGGGD EVAGEKVRGP PPAPAGAADG KVRFPRRPGE PDCSYYLKFG TCRFGIKCKF  120
NHPSRKKKSS RARGSGSSGS GSNSSSNKTS SPDDDQAPRE EYEGLVPDIS DSVTFHDKES  180
SSNSGNHRKT SNEVIDIKKG RMESKEKISE ELEKGVYFKK LDETNITNQK ILKGVKDKRK  240
ETFLEGSVQE ECKYYSTPGG CKFGTACKYL HREGKEGKAE VEKVELNFLG LPLRPGEKEC  300
PFYMRTGSCK FATNCKFHHP DPSNVASKEP VLEHENGDNP QQSAQGPSQP SVPIWPEQRA  360
LNEQHVPFLA PAPSYSAGMI PPQGMYPSPD WTGYHQVNVL Y*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.101780.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3NG175100.3.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_025807655.10.0zinc finger CCCH domain-containing protein 65-like isoform X1
SwissprotQ2QTY21e-147C3H65_ORYSJ; Zinc finger CCCH domain-containing protein 65
TrEMBLA0A2T7EFS50.0A0A2T7EFS5_9POAL; Uncharacterized protein
STRINGPavir.Cb01040.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63260.29e-25C3H family protein
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]