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.2KG206100.1.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: 408aa    MW: 45029.9 Da    PI: 8.7112
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2KG206100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.57.2e-112144326
                         S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
                         ++ C++++rtG C++G +CkF+H+
  Pavir.2KG206100.1.p 21 EPDCSYYMRTGMCRFGMTCKFNHP 44
                         789********************8 PP
2zf-CCCH35.22.2e-116590227
                         -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                         ++++C+++++t tCk+G++CkF+H++
  Pavir.2KG206100.1.p 65 GQPECQYYLKTSTCKFGATCKFHHPR 90
                         5799********************96 PP
3zf-CCCH36.76.8e-12112136327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +++C +++rtG+Ck+G++CkF+H++
  Pavir.2KG206100.1.p 112 EKECAYYLRTGQCKFGSTCKFHHPQ 136
                          679********************97 PP
4zf-CCCH391.3e-12273298227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C+f+++tG+Ck+G  CkF+H++
  Pavir.2KG206100.1.p 273 DQPECQFYMKTGECKFGVVCKFHHPR 298
                          689*********************96 PP
5zf-CCCH37.53.9e-12318343126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          +++++C+f++r+G Ck+G++CkF H+
  Pavir.2KG206100.1.p 318 PGEPICSFYSRYGMCKFGPNCKFDHP 343
                          5799*********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.2531846IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-41845IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-72144IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-52346IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.3E-42445IPR000571Zinc finger, CCCH-type
SMARTSM003562.9E-56390IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.5776391IPR000571Zinc finger, CCCH-type
PfamPF006428.6E-96590IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.59E-66792IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.7E-46991IPR000571Zinc finger, CCCH-type
SMARTSM003563.3E-5109136IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.2E-6109138IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.582109137IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-9112136IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-4115135IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.23271299IPR000571Zinc finger, CCCH-type
SMARTSM003566.9E-5271298IPR000571Zinc finger, CCCH-type
PfamPF006422.2E-9273298IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-5274300IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.5E-4277299IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-6316343IPR000571Zinc finger, CCCH-type
SMARTSM003564.7E-7317344IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.46317345IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-8319343IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.4E-4322342IPR000571Zinc 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: 408 aa     Download sequence    Send to blast
MWQMNLGEAV ELGPYPERVG EPDCSYYMRT GMCRFGMTCK FNHPADRKLA VAAARMKGEY  60
PQRNGQPECQ YYLKTSTCKF GATCKFHHPR EKAAMATRVQ LNELGYPFRP SEKECAYYLR  120
TGQCKFGSTC KFHHPQPSTM MVAVRGSGYS PGQSATSPGQ HAYQGAVTSW PLSRSTSFIA  180
SPRWPGHSSY AQVLVPPGLV QVPGWNPYTA QIGSSSSEDQ QQTPGAAQYY TGSRQSGTPC  240
IGDQGMFSSY QAGSVPVGLY AVQRENVFPE RPDQPECQFY MKTGECKFGV VCKFHHPRER  300
IIPAPNCALS SLGLPLRPGE PICSFYSRYG MCKFGPNCKF DHPIGTVMYG HVSSPTSEVP  360
TSRRMLAYVP SHPEVLPDNG SGRSRRITHS DSQQIPSGER STEREAS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.10810.0callus| leaf| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2KG206100.1.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
GenBankBT0341780.0BT034178.1 Zea mays full-length cDNA clone ZM_BFc0032H13 mRNA, complete cds.
GenBankBT0608430.0BT060843.1 Zea mays full-length cDNA clone ZM_BFb0059K13 mRNA, complete cds.
GenBankBT0642190.0BT064219.1 Zea mays full-length cDNA clone ZM_BFc0149L04 mRNA, complete cds.
GenBankBT0857450.0BT085745.1 Zea mays full-length cDNA clone ZM_BFc0056E16 mRNA, complete cds.
GenBankEU9569840.0EU956984.1 Zea mays clone 1579587 zinc finger CCCH type domain-containing protein ZFN-like mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025827472.10.0zinc finger CCCH domain-containing protein 63 isoform X1
RefseqXP_025827474.10.0zinc finger CCCH domain-containing protein 63 isoform X2
SwissprotQ2R4J40.0C3H63_ORYSJ; Zinc finger CCCH domain-containing protein 63
TrEMBLA0A3L6Q1A70.0A0A3L6Q1A7_PANMI; Zinc finger CCCH domain-containing protein 63 isoform X1
STRINGPavir.J23327.1.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-145zinc 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]