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.5KG166900.1.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: 473aa    MW: 49553.1 Da    PI: 7.2575
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG166900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.95.5e-116086127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         ++++ C +++rtG C +GdrC+++H++
  Pavir.5KG166900.1.p 60 PGEADCGYYLRTGACGFGDRCRYNHPR 86
                         57899********************96 PP
2zf-CCCH36.11.1e-11110135227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C ++++tGtCk+G++Ck++H++
  Pavir.5KG166900.1.p 110 GQPICEYYFKTGTCKFGSNCKYHHPK 135
                          789*********************96 PP
3zf-CCCH38.42.1e-12155180227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+++++tG+Ck+G +CkF+H++
  Pavir.5KG166900.1.p 155 GEKECSYYMKTGQCKFGTTCKFHHPE 180
                          7899********************96 PP
4zf-CCCH37.63.8e-12308334127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +++++C++++rtG Ck+G++Ck++H++
  Pavir.5KG166900.1.p 308 PGQPECQYYMRTGDCKFGGTCKYNHPR 334
                          5789*********************96 PP
5zf-CCCH322.1e-10357380427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                           +C ++a++G+C+yG  Ck+ H++
  Pavir.5KG166900.1.p 357 QPCAYYAQNGYCRYGVACKYDHPM 380
                          69********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003565.9E-65986IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.925987IPR000571Zinc finger, CCCH-type
PfamPF006429.5E-96186IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.11E-56387IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.1E-46586IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.817108136IPR000571Zinc finger, CCCH-type
SMARTSM003563.7E-6108135IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-9110135IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.18E-6111137IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.4E-5113137IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-6153180IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.371153181IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-9155180IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.33E-6156180IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-4159179IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.821307335IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-5307334IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-9309334IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-5311335IPR000571Zinc finger, CCCH-type
SMARTSM003562.0E-6353380IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.892353381IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.05E-5354382IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-8357380IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.5E-5357378IPR000571Zinc 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: 473 aa     Download sequence    Send to blast
MEPPHAEEAA AAGGGGGEGG RASPGTGLEG PMLRLGLDGG GDGEGGEREA EADARLPERP  60
GEADCGYYLR TGACGFGDRC RYNHPRDRGG TEFGGGAKNG AASDFPERQG QPICEYYFKT  120
GTCKFGSNCK YHHPKQDGSV QSVILNNGGF PLRPGEKECS YYMKTGQCKF GTTCKFHHPE  180
FGGIPVTPGI YPPLQSASVP SPHTYAPLAN WQMGRSPVVP GSYIPGSYTP MMLSSGMVPL  240
QGWSPYPASV NSVASGGAQQ TVQAGPLYGI GHHGSSATIA YGSPYMPYSS STGQSSNNHQ  300
EHGFPERPGQ PECQYYMRTG DCKFGGTCKY NHPRDWSAAK SNYVFSPLCL PLRPGAQPCA  360
YYAQNGYCRY GVACKYDHPM GALGYSSSAL PLSDMPIAPY PLGFSVATLA PSSSSPEYIS  420
TKDPSINQVA SPVAAPEPVG AVLPKGVFPP DTIMRTQTST TGVGSSSPGG GR*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.8570.0callus| leaf| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG166900.1.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
GenBankEU9688300.0EU968830.1 Zea mays clone 324384 zinc finger CCCH type domain-containing protein ZFN-like 1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004967811.10.0zinc finger CCCH domain-containing protein 6
SwissprotQ5NAW20.0C3H6_ORYSJ; Zinc finger CCCH domain-containing protein 6
TrEMBLA0A3L6QXY70.0A0A3L6QXY7_PANMI; Zinc finger CCCH domain-containing protein 6-like
STRINGPavir.Ea00916.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27613889
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47850.31e-121C3H 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]
  2. Friedrichs G,Fikri M,Guo Y,Temps F
    Time-resolved cavity ringdown measurements and kinetic modeling of the pressure dependences of the recombination reactions of SiH2 with the alkenes C2H4, C3H6, and t-C4H8.
    J Phys Chem A, 2008. 112(25): p. 5636-46
    [PMID:18512897]
  3. Ning H,Gong C,Li Z,Li X
    Pressure-dependent kinetics of initial reactions in iso-octane pyrolysis.
    J Phys Chem A, 2015. 119(18): p. 4093-107
    [PMID:25868004]