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.5KG726700.1.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: 423aa    MW: 45985 Da    PI: 8.6196
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG726700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH283.6e-096893227
                         -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                         +++ C +++rtG C++G  C+F+H+p
  Pavir.5KG726700.1.p 68 GEPDCTYYLRTGLCRFGMCCRFNHPP 93
                         789*********************97 PP
2zf-CCCH39.49.8e-13113138227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+++++tGtCk+G++CkF+H++
  Pavir.5KG726700.1.p 113 GQPECQYYLKTGTCKFGPTCKFHHPR 138
                          5799********************96 PP
3zf-CCCH31.62.8e-10160184327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +++C ++++tG+Cky ++CkF+H++
  Pavir.5KG726700.1.p 160 EKECAYYLKTGQCKYANTCKFHHPE 184
                          679********************96 PP
4zf-CCCH39.31.1e-12311336227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+++++tG Ck+G+ CkF+H++
  Pavir.5KG726700.1.p 311 DQPECQYYMKTGDCKFGAVCKFHHPR 336
                          689*********************96 PP
5zf-CCCH42.69.9e-14356382127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +++elC+f++r+G+Ck+G++CkF H++
  Pavir.5KG726700.1.p 356 PGEELCKFYSRYGICKFGANCKFDHPM 382
                          689**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.1976694IPR000571Zinc finger, CCCH-type
SMARTSM003560.0246693IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-56893IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.751111139IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-6111138IPR000571Zinc finger, CCCH-type
PfamPF006423.3E-10114138IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-6115140IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.6E-5117139IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.18E-5157184IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.61157185IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-4157184IPR000571Zinc finger, CCCH-type
PfamPF006422.9E-7160184IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-4163183IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.023309337IPR000571Zinc finger, CCCH-type
SMARTSM003565.9E-5309336IPR000571Zinc finger, CCCH-type
PfamPF006422.7E-9311336IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-5312336IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.8E-4315335IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.591355383IPR000571Zinc finger, CCCH-type
SMARTSM003568.7E-8355382IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-6356382IPR000571Zinc finger, CCCH-type
PfamPF006427.3E-11357382IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-5359380IPR000571Zinc 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: 423 aa     Download sequence    Send to blast
MDDAGRASAP AAVTVSATAA PVHPPPSATA ADTPSPDPSA LYGEGMWEQM AMNSGATMQP  60
GPYPERQGEP DCTYYLRTGL CRFGMCCRFN HPPDRNLAIA SARMKGEYPE RLGQPECQYY  120
LKTGTCKFGP TCKFHHPREK AGIAGRVQLN TLGYPLRPNE KECAYYLKTG QCKYANTCKF  180
HHPELFNVVP SSRGSPIYPS VHSSASTGPQ SYTGTMASWA FPRASFIPSP RWQSPSNYAP  240
MIVPQGLVQV PSWNSYPGQM QSPGAQQTYG TSQQGEASTG NQGMLSPYRS SSFPVPQYAL  300
QRENVFPERP DQPECQYYMK TGDCKFGAVC KFHHPRVRSL PPPDCVLSPM GLPIRPGEEL  360
CKFYSRYGIC KFGANCKFDH PMATPMGVYA YGFSASASAS ASTNVPMARR LLGSPSGSGY  420
TS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.33390.0callus| leaf
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG726700.1.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.J05626.1.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-146zinc 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]