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.5NG285200.1.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: 528aa    MW: 57302.6 Da    PI: 7.3186
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG285200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH35.71.5e-11141166227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          +++ C f++rt tC+yG+ CkF H++
  Pavir.5NG285200.1.p 141 GEKDCAFYMRTRTCNYGEACKFDHPQ 166
                          7889********************97 PP
2zf-CCCH36.76.8e-12245269327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          ++ C+f+ +tG Ck+G++CkF+H++
  Pavir.5NG285200.1.p 245 EPVCSFYVKTGKCKFGAKCKFNHPK 269
                          789********************96 PP
3zf-CCCH36.58.3e-12323348126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++++ C+f+++tG CkyG+ C+F+H+
  Pavir.5NG285200.1.p 323 PGEVDCSFYMKTGSCKYGSICRFNHP 348
                          57899********************9 PP
4zf-CCCH33.28.9e-11409433226
                          -S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                          ++  C+f+++tG Cky  +CkF+H+
  Pavir.5NG285200.1.p 409 GETACDFYMKTGSCKYSQKCKFHHP 433
                          6789********************8 PP
5zf-CCCH37.63.7e-12465488427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                          e+C f++r+GtC+yG+ CkF H+p
  Pavir.5NG285200.1.p 465 EICAFYMRSGTCRYGALCKFDHPP 488
                          89********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003569.7E-4139166IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.178139167IPR000571Zinc finger, CCCH-type
PfamPF006423.6E-9141166IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-5141166IPR000571Zinc finger, CCCH-type
SMARTSM003560.78189216IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.925189217IPR000571Zinc finger, CCCH-type
PfamPF146080.52203215No hitNo description
SMARTSM003561.8E-6242269IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.1E-6242269IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.901242270IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-9245269IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.5E-5247268IPR000571Zinc finger, CCCH-type
SMARTSM003568.7E-6322349IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.788322350IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-9324348IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.35E-5326350IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-4328347IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.49E-6406435IPR000571Zinc finger, CCCH-type
SMARTSM003563.8E-5407434IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.394407435IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-8409433IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-4413433IPR000571Zinc finger, CCCH-type
SMARTSM003564.8E-6461488IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.178461489IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-5463489IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-5465486IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-9465488IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 528 aa     Download sequence    Send to blast
MSDPRYPYSR GALLGGDGEP PPPPPPRYSD FEVDLIAARY AAAPPPPPYP SSADASAFDS  60
HVGAFDSLVG AFDSPVGAFD SHFGAFDSHA GAGRSAGALY HQSFMGSHST VGQNEALYSS  120
NTMAKRPRLE SSFPMYPQRP GEKDCAFYMR TRTCNYGEAC KFDHPQWVPE GGVPNWKEFR  180
NVEDSYPERP GEPDCPYLVK SNRCRFKSKC KFNHPKEKVN ALSAGTDNGQ SLIADSAILP  240
VRPSEPVCSF YVKTGKCKFG AKCKFNHPKD VGIAPVIAKE TIYTATTDAA AHIGTADSSV  300
PAKTHAPTAP AEAHNAKGLP IRPGEVDCSF YMKTGSCKYG SICRFNHPYR PVVDIASMAP  360
LVQATLPTPE PITSAAVLNP VANITQCFDF HATHLPIEPV PIIYPQRPGE TACDFYMKTG  420
SCKYSQKCKF HHPINRSAPD ANENGDPQQP VTLTLAGLPR REDAEICAFY MRSGTCRYGA  480
LCKFDHPPPQ EAIAKLQAGG KEGEKEKEGE EKEKKGEEKE GLSVVLR*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.102990.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG285200.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815023.10.0zinc finger CCCH domain-containing protein 8-like isoform X3
SwissprotQ5ZDJ60.0C3H8_ORYSJ; Zinc finger CCCH domain-containing protein 8
TrEMBLA0A2S3HTX70.0A0A2S3HTX7_9POAL; Uncharacterized protein
STRINGPavir.Eb01915.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58163757
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12680.11e-139floral homeotic protein (HUA1)
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. Zhu RS,Xu ZF,Lin MC
    Ab initio studies of alkyl radical reactions: Combination and disproportionation reactions of CH3 with C2H5, and the decomposition of chemically activated C3H8.
    J Chem Phys, 2004. 120(14): p. 6566-73
    [PMID:15267548]