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.2NG443300.1.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: 140aa    MW: 15366.7 Da    PI: 9.4149
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG443300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.68.7e-082753127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         +++++C+++++tG Ck+G+  kF+H++
  Pavir.2NG443300.1.p 27 PDRPECQYYMKTGGCKFGAVRKFHHPR 53
                         579****************99999985 PP
2zf-CCCH44.72.1e-147399127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         +++elC+f++r+G+Ck+G++CkF H++
  Pavir.2NG443300.1.p 73 PGEELCKFYSRYGICKFGANCKFDHPM 99
                         689**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501039.8362654IPR000571Zinc finger, CCCH-type
SMARTSM003560.482753IPR000571Zinc finger, CCCH-type
PfamPF006422.4E-42852IPR000571Zinc finger, CCCH-type
SMARTSM003568.7E-87299IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.59172100IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.1E-77299IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-117399IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.1E-67697IPR000571Zinc 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: 140 aa     Download sequence    Send to blast
MLSPYRSSSF PVPQYALQRE DVFPERPDRP ECQYYMKTGG CKFGAVRKFH HPRVRSLPPP  60
DCVLSPMGLP IRPGEELCKF YSRYGICKFG ANCKFDHPMA TPMGVYAYGF SASASASAST  120
NVPMARRLLG SPPGSGYTS*
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG443300.1.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
GenBankBT0369071e-129BT036907.1 Zea mays full-length cDNA clone ZM_BFb0146O18 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817371.19e-83zinc finger CCCH domain-containing protein 12-like
SwissprotQ5JLB55e-76C3H12_ORYSJ; Zinc finger CCCH domain-containing protein 12
TrEMBLA0A0A9D1L32e-83A0A0A9D1L3_ARUDO; Uncharacterized protein
TrEMBLA0A2S3HNP25e-83A0A2S3HNP2_9POAL; Uncharacterized protein
TrEMBLA0A2T7DCH65e-83A0A2T7DCH6_9POAL; Uncharacterized protein
STRINGPavir.Ba01299.1.p7e-97(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
AT5G16540.39e-46zinc finger nuclease 3
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]