PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5KG726700.2.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 C3H
Protein Properties Length: 419aa    MW: 45417.3 Da    PI: 8.5432
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG726700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.13.6e-096893227
                         -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                         +++ C +++rtG C++G  C+F+H+p
  Pavir.5KG726700.2.p 68 GEPDCTYYLRTGLCRFGMCCRFNHPP 93
                         789*********************97 PP
2zf-CCCH23.97e-081181341127
                          GTS--TTTTT-SS-SSS CS
              zf-CCCH  11 rtGtCkyGdrCkFaHgp 27 
                          +tGtCk+G++CkF+H++
  Pavir.5KG726700.2.p 118 QTGTCKFGPTCKFHHPR 134
                          69*************96 PP
3zf-CCCH31.62.8e-10156180327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +++C ++++tG+Cky ++CkF+H++
  Pavir.5KG726700.2.p 156 EKECAYYLKTGQCKYANTCKFHHPE 180
                          679********************96 PP
4zf-CCCH39.31e-12307332227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+++++tG Ck+G+ CkF+H++
  Pavir.5KG726700.2.p 307 DQPECQYYMKTGDCKFGAVCKFHHPR 332
                          689*********************96 PP
5zf-CCCH42.69.8e-14352378127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +++elC+f++r+G+Ck+G++CkF H++
  Pavir.5KG726700.2.p 352 PGEELCKFYSRYGICKFGANCKFDHPM 378
                          689**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.0246693IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.1976694IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-56893IPR000571Zinc finger, CCCH-type
SMARTSM003560.36111134IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-5118134IPR000571Zinc finger, CCCH-type
PROSITE profilePS501039.347118135IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-4153180IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.15E-5153180IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.61153181IPR000571Zinc finger, CCCH-type
PfamPF006422.9E-7156180IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-4159179IPR000571Zinc finger, CCCH-type
SMARTSM003565.9E-5305332IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.023305333IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-9307332IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-5308332IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.7E-4311331IPR000571Zinc finger, CCCH-type
SMARTSM003568.7E-8351378IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.591351379IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-6352378IPR000571Zinc finger, CCCH-type
PfamPF006427.3E-11353378IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-5355376IPR000571Zinc 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: 419 aa     Download sequence    Send to blast
MDDAGRASAP AAVTVSATAA PVHPPPSATA ADTPSPDPSA LYGEGMWEQM AMNSGATMQP  60
GPYPERQGEP DCTYYLRTGL CRFGMCCRFN HPPDRNLAIA SARMKGEYPE RLGQPECQTG  120
TCKFGPTCKF HHPREKAGIA GRVQLNTLGY PLRPNEKECA YYLKTGQCKY ANTCKFHHPE  180
LFNVVPSSRG SPIYPSVHSS ASTGPQSYTG TMASWAFPRA SFIPSPRWQS PSNYAPMIVP  240
QGLVQVPSWN SYPGQMQSPG AQQTYGTSQQ GEASTGNQGM LSPYRSSSFP VPQYALQREN  300
VFPERPDQPE CQYYMKTGDC KFGAVCKFHH PRVRSLPPPD CVLSPMGLPI RPGEELCKFY  360
SRYGICKFGA NCKFDHPMAT PMGVYAYGFS ASASASASTN VPMARRLLGS PSGSGYTS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.33390.0callus| leaf
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG726700.2.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.J05626.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.11e-140zinc 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]