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.6NG030300.1.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: 925aa    MW: 102121 Da    PI: 9.4827
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6NG030300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.14.8e-06196214625
                          -SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                          Cr+f + G C++G +C+F H
  Pavir.6NG030300.1.p 196 CRDFVA-GRCRRGLNCRFLH 214
                          99****.************* PP
2zf-CCCH27.55.3e-09277299326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                          te C +fa+ G C +G++C+FaHg
  Pavir.6NG030300.1.p 277 TEQCYNFAK-GRCARGASCRFAHG 299
                          899******.*************9 PP
3zf-CCCH23.59.7e-08338357525
                          --SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaH 25 
                          +C+ffa+ G C++G++C++ H
  Pavir.6NG030300.1.p 338 PCKFFAE-GRCRRGENCSYLH 357
                          8******.************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.085191216IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.512195217IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.1E-4196216IPR000571Zinc finger, CCCH-type
SMARTSM003560.002274300IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.497274301IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-6277299IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-6277300IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-4333359IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.22333360IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-7334358IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.0E-5336359IPR000571Zinc finger, CCCH-type
PfamPF006422.7E-5337357IPR000571Zinc 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: 925 aa     Download sequence    Send to blast
MSGDSRRQRS KWDAKEGSHD IVEISEDESL PDKTSVDHGG AGHEKEHADG FNKDTKELQP  60
KAPSERSQPL RVADERDNNE WSKAAGNQGM NRYADDRRRG DGWGTARSRG YSSRVPSDTD  120
AWRPRSRSPS PRGVWNRSRR NRSRSRSRSR SRNRSRSRSR SIGRGRGRSR SPYFADRGSE  180
WRVERGRTSG GPALSCRDFV AGRCRRGLNC RFLHEDGGHR PFEDRYPADP RERFGYQNKE  240
FMDSREPNDY LRSRQSRDHY DDGPWERSEP RRDYRSTEQC YNFAKGRCAR GASCRFAHGD  300
SGSHGGWRDE ARESAHDRGG PDSSYVNRTE HRRVNKNPCK FFAEGRCRRG ENCSYLHEEA  360
PHSQIGVSAP DEPLNYSDGR SARGNYSNWG EQNNAMHTTP QILSRDDREN PVSQSIGRND  420
SSYEYESRHS KDAGKSHFQI STQEDFGSQV ENKHEVAVSQ QPQLLAPVHT TADNMNNVNV  480
PSMGGQNAPA TLGDLSMQPG MHSANSLAEQ SLGQILQRHD EIPHITGPST LPVATQLQNV  540
TSSFPLNNHV QQNNFPVHHN RQEQFVVPQA AANNSTPSMQ GQPVAPRMGH GQHGYGLEPQ  600
ALPNSAVHNG HNFSAAGQVP QNLPTTVLAG QSQATVDIPR LSQDSGSQSI QNMQNFQPVA  660
PNMQNQSLQG LPLVPTSSST DMVGVTVSHN AAKSEEVSRV TASLAQYFGN TAFGAGTGLQ  720
SSQPNVNSSL MANSSAVPPS VQPNQWPWTQ QQTGLVQSGL SVPSEQKQQH APQTFQMPIA  780
VSSSNGNSML LPHAGAPSGP AAAAAVASVV NETMPPESKK GENKDSDAEA HEDGDNKKSK  840
DSKPLKMFKV ALADFVKEAL KPTWKEGQMS REVHKTIVKK VVDKVTSTVE NTPPTKEKIE  900
IYMSYSKDKL NKLVQAYVGK YAKA*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1149159RSRNRSRSRSR
2151159RNRSRSRSR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.167370.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6NG030300.1.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_025820462.10.0zinc finger CCCH domain-containing protein 55-like
RefseqXP_025820463.10.0zinc finger CCCH domain-containing protein 55-like
SwissprotQ6YYC00.0C3H55_ORYSJ; Zinc finger CCCH domain-containing protein 55
TrEMBLA0A2S3HZY10.0A0A2S3HZY1_9POAL; Uncharacterized protein
STRINGPavir.J39457.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP77663443
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33835.12e-08C3H 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]