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.5KG719000.1.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 C3H
Protein Properties Length: 429aa    MW: 46372.4 Da    PI: 8.5829
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG719000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH32.61.3e-107298127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         ++++ C +++rtG C++G +C+F+H+p
  Pavir.5KG719000.1.p 72 PGEPDCTYYLRTGLCRFGMSCRFNHPP 98
                         5789*********************97 PP
2zf-CCCH38.12.6e-12119143327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +++C+++++tGtCk+G++CkF+H++
  Pavir.5KG719000.1.p 119 QPECQYYLKTGTCKFGPTCKFHHPR 143
                          799********************96 PP
3zf-CCCH31.62.8e-10165189327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +++C ++++tG+Cky ++CkF+H++
  Pavir.5KG719000.1.p 165 EKECAYYLKTGQCKYANTCKFHHPE 189
                          679********************96 PP
4zf-CCCH39.31.1e-12316341227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+++++tG Ck+G+ CkF+H++
  Pavir.5KG719000.1.p 316 DQPECQYYMKTGDCKFGAVCKFHHPR 341
                          689*********************96 PP
5zf-CCCH42.61e-13361387127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +++elC+f++r+G+Ck+G++CkF H++
  Pavir.5KG719000.1.p 361 PGEELCKFYSRYGICKFGANCKFDHPM 387
                          689**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.9717199IPR000571Zinc finger, CCCH-type
SMARTSM003563.0E-57198IPR000571Zinc finger, CCCH-type
PfamPF006424.3E-87398IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-57699IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.2E-47797IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.694116144IPR000571Zinc finger, CCCH-type
SMARTSM003565.1E-6116143IPR000571Zinc finger, CCCH-type
PfamPF006429.0E-10119143IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-6120145IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.7E-5122144IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.19E-5162189IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-4162189IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.61162190IPR000571Zinc finger, CCCH-type
PfamPF006423.0E-7165189IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-4168188IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.023314342IPR000571Zinc finger, CCCH-type
SMARTSM003565.9E-5314341IPR000571Zinc finger, CCCH-type
PfamPF006422.7E-9316341IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-5317341IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.8E-4320340IPR000571Zinc finger, CCCH-type
SMARTSM003568.7E-8360387IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.591360388IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-6361387IPR000571Zinc finger, CCCH-type
PfamPF006427.5E-11362387IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.4E-5364385IPR000571Zinc 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: 429 aa     Download sequence    Send to blast
MDEAGRASAP AAVTVSATTA PAHPPPSATA AAAAATDTSS PDPSALYGEG MWEQMAMNSG  60
ATMQPGPYPE RPGEPDCTYY LRTGLCRFGM SCRFNHPPDR NLAIASARMK GEYPERVGQP  120
ECQYYLKTGT CKFGPTCKFH HPREKAGIAG RVQLNTLGYP LRPNEKECAY YLKTGQCKYA  180
NTCKFHHPEL FNVVPSSRGS PIYPSVHSSA STGPQSYPGT MASWAFPRAS FIPSPRWQSP  240
SNYAPMIVPQ GLVQVPSWNS YPGQLQSPGV QQTYGTSQQG EASSGNQGML SPYRSSSFPV  300
PQYALQRENV FPERPDQPEC QYYMKTGDCK FGAVCKFHHP RVRSLPPPDC VLSPMGLPIR  360
PGEELCKFYS RYGICKFGAN CKFDHPMAAP MGVYAYSFSA SASPASASTN VPMARQLLGS  420
PSGSGYPS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.33390.0callus| leaf
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG719000.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0370350.0BT037035.1 Zea mays full-length cDNA clone ZM_BFb0152E14 mRNA, complete cds.
GenBankJX4284670.0JX428467.1 Zea mays subsp. mays clone pUT3062 C3H49 C3H type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004971057.10.0zinc finger CCCH domain-containing protein 12
SwissprotQ5JLB50.0C3H12_ORYSJ; Zinc finger CCCH domain-containing protein 12
TrEMBLK3XI360.0K3XI36_SETIT; Uncharacterized protein
STRINGPavir.Ea03945.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP115338132
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.11e-149zinc finger protein 1
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]
  2. Deng H,Liu H,Li X,Xiao J,Wang S
    A CCCH-type zinc finger nucleic acid-binding protein quantitatively confers resistance against rice bacterial blight disease.
    Plant Physiol., 2012. 158(2): p. 876-89
    [PMID:22158700]