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.3KG239900.3.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: 453aa    MW: 48521.1 Da    PI: 7.052
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG239900.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH31.62.8e-10102127126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++++ C+f+ ++G C++G +CkF+H+
  Pavir.3KG239900.3.p 102 PGEPDCSFYVKFGSCRFGIKCKFNHP 127
                          5789*********************8 PP
2zf-CCCH26.31.3e-08253275325
                          S---SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaH 25 
                          +e+C++++  G Ck+G  Ck+ H
  Pavir.3KG239900.3.p 253 QEECKYYSTPGGCKFGTACKYLH 275
                          589******************** PP
3zf-CCCH33.56.9e-11300324226
                          -S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                          ++++C+f++rtG Ck+  +CkF+H+
  Pavir.3KG239900.3.p 300 GEKECPFYMRTGSCKFATNCKFHHP 324
                          7899********************9 PP
4zf-CCCH24.54.8e-08401426227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          +++ C ++ r+G CkyG+ C F+H++
  Pavir.3KG239900.3.p 401 DQPVCTYYGRFGVCKYGPACMFNHPF 426
                          5799********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.427101129IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-4101128IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-7103127IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.962250278IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-4251277IPR000571Zinc finger, CCCH-type
PfamPF006427.6E-6254275IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.03E-5254278IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-4256277IPR000571Zinc finger, CCCH-type
SMARTSM003561.9E-5298325IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.896298326IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-7300324IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.02E-5301325IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.1E-4304323IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.962400427IPR000571Zinc finger, CCCH-type
SMARTSM003560.0042400426IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-5401426IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.16E-5401426IPR000571Zinc 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: 453 aa     Download sequence    Send to blast
MADADANTQP PDAAASPIAS ISPSSVGAAD ADADAIEKQL AGLGIAVAGG GGFPGPSGWD  60
DVPVPVPVAV GGGDEVAAEK VRGPPPAPAG AADGKVRFPR RPGEPDCSFY VKFGSCRFGI  120
KCKFNHPSRK KKSNRARGSG SSVSGSNSSS NKTSSPDDDQ APREEYEGLV PDISDSVSFH  180
DKGSSSNSGN HRKTSYEVID MKKGRMESKE KIAEELEKGV YFKKLDETNI TNQKILKGVK  240
DKRKETFSEG SPQEECKYYS TPGGCKFGTA CKYLHREGRE GKAEVEKVEL NFLGLPLRPG  300
EKECPFYMRT GSCKFATNCK FHHPDPSNVA SKEPVLEHEN GDNPQQNVQG PSQPSVPIWP  360
EQRALNEQHV PFLAPAPSYS AGMIPPQGMY PSPDWTGYHQ DQPVCTYYGR FGVCKYGPAC  420
MFNHPFNFGP PIPAAGPPLP GQYHPTPGNF TV*
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.3KG239900.3.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-152C3H65_ORYSJ; Zinc finger CCCH domain-containing protein 65
TrEMBLA0A2T7EFS50.0A0A2T7EFS5_9POAL; Uncharacterized protein
STRINGPavir.J05246.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63260.27e-29C3H 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]