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.5KG413900.1.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: 526aa    MW: 57511 Da    PI: 6.7705
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG413900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH34.82.7e-11138163227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          + + C f++rt tC+yG++CkF H++
  Pavir.5KG413900.1.p 138 GKKDCAFYMRTRTCNYGETCKFDHPQ 163
                          6789********************97 PP
2zf-CCCH20.21e-06185211127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++ C++f ++  C++ ++CkF+H++
  Pavir.5KG413900.1.p 185 PGEPDCPYFVKSNSCRFKSKCKFNHPK 211
                          5789*********************96 PP
3zf-CCCH36.76.8e-12240264327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          ++ C+f+ +tG Ck+G++CkF+H++
  Pavir.5KG413900.1.p 240 EPVCSFYVKTGKCKFGAKCKFNHPK 264
                          789********************96 PP
4zf-CCCH33.95.4e-11318343126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++++ C f+++tG CkyG+ C+F+H+
  Pavir.5KG413900.1.p 318 PGEVDCLFYMKTGSCKYGSICRFNHP 343
                          57899********************9 PP
5zf-CCCH34.14.7e-11404428226
                          -S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                          ++  C+f+++tG Cky  +CkF+H+
  Pavir.5KG413900.1.p 404 GETVCDFYMKTGSCKYSQKCKFHHP 428
                          6789********************8 PP
6zf-CCCH36.39.4e-12460483427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                          e+C f++r+GtC+yG  CkF H+p
  Pavir.5KG413900.1.p 460 EICAFYMRSGTCRYGVLCKFDHPP 483
                          89********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.413136164IPR000571Zinc finger, CCCH-type
SMARTSM003560.0032136163IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.49E-5137163IPR000571Zinc finger, CCCH-type
PfamPF006426.8E-9138163IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.3E-4142162IPR000571Zinc finger, CCCH-type
SMARTSM003560.013184211IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.051184212IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-4186211IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.901237265IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.71E-6237265IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-6237264IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-9240264IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-5242263IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.441317345IPR000571Zinc finger, CCCH-type
SMARTSM003564.0E-5317344IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-8319343IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-5321345IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.9E-4323342IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.22E-6401430IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.845402430IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-5402429IPR000571Zinc finger, CCCH-type
PfamPF006427.3E-9404428IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-5407428IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.873456484IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-5456483IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.19E-5458482IPR000571Zinc finger, CCCH-type
PfamPF006422.9E-9460483IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.6E-5460481IPR000571Zinc 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: 526 aa     Download sequence    Send to blast
MSDPLYPFSR GALPGGDGKP PPPRYSDFEV DLIAARYASS PPPPPYPSAA DASAFDSHVG  60
AFDSHIGAFD SHVGAFDSHI GAFDLYVGAG RYAGALYHQS FMGSHSTVGQ NEALYSSNTM  120
AKRPRLESSL PMYPQRPGKK DCAFYMRTRT CNYGETCKFD HPQWVPEGGV PNWKEVPEDS  180
YPERPGEPDC PYFVKSNSCR FKSKCKFNHP KEKVNALCAG TDNGQSLIAD SAILPVRPSE  240
PVCSFYVKTG KCKFGAKCKF NHPKDVEIAP VIAKETIYTA TTDAAAHIGT ADSSVQAKAH  300
APTAPAEAHN AKGFPIRPGE VDCLFYMKTG SCKYGSICRF NHPYRPVVDV ALMDPLVQDT  360
LPTPAPIDSA AVLNPAANIM QCFDFYATHV PIEPLPIMYP QRPGETVCDF YMKTGSCKYS  420
QKCKFHHPIN RSVHDANENE DPQQPVTLTL AGLPRREDAE ICAFYMRSGT CRYGVLCKFD  480
HPPLQEAIAK LQAGGKEGEK EEGEEKEGVE KKGVEEKEGL SVVLR*
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.5KG413900.1.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.Ea02049.1.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-131floral 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]