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.9KG555000.1.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: 412aa    MW: 43822.9 Da    PI: 8.1247
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG555000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH32.31.7e-10342366227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ktelC+ + r G C+y +rC+FaHg+
  Pavir.9KG555000.1.p 342 KTELCNKWER-GACPYDGRCRFAHGM 366
                          9*********.*************95 PP
2zf-CCCH19.51.8e-06378403126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ykt  C+ fa+   C+yG rC+F H+
  Pavir.9KG555000.1.p 378 YKTLACQLFAAASGCPYGHRCHFRHS 403
                          99*********************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.211340367IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.79E-8340371IPR000571Zinc finger, CCCH-type
SMARTSM003569.1E-7340366IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.4E-14340372IPR000571Zinc finger, CCCH-type
PfamPF006425.8E-8342366IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.0E-9373403IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-7374404IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.389377405IPR000571Zinc finger, CCCH-type
SMARTSM003565.5E-4377404IPR000571Zinc 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: 412 aa     Download sequence    Send to blast
MEGELGFLSP ARPSRVSSER GDGRGFGSPT WSSPLGTLLE SPSSRVSEGR ACEDGVSGFS  60
SPTWGSPLLN LFNTPSSGVS DDSPVGGNGF GFNSPTWGSP LERLFNSPSS CVSDSRGGGN  120
GSGSGISTPK QASPLGMLFN SPSSCFSDSR SGGNGSGSVF STPKHAPPLE TLLNSPSSCV  180
SDSRGGGNSS SLRVSKELDS EVQKAERLLR AITERYNNCF LRLRNATAEL ADLRRERIRL  240
GAENLHLSLL LEEHVVAEQS NQASAVPLTP PLKPVQAEAA SGCAPKSISI RSKSFISPKQ  300
PLREIQPQRL RVRASPAKED TGGKEKDDGE VELEAYGQGA LKTELCNKWE RGACPYDGRC  360
RFAHGMEELR PVIRHPRYKT LACQLFAAAS GCPYGHRCHF RHSLPSIAES C*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A2e-16342403567Butyrate response factor 2
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.240511e-86root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG555000.1.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
GenBankAC1186689e-78AC118668.2 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0036G02, from chromosome 3, complete sequence.
GenBankAC1372679e-78AC137267.2 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0032G21, from chromosome 3, complete sequence.
GenBankAP0149599e-78AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
GenBankCP0126119e-78CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796553.10.0putative zinc finger CCCH domain-containing protein 21 isoform X2
SwissprotQ10MN81e-117C3H21_ORYSJ; Putative zinc finger CCCH domain-containing protein 21
TrEMBLA0A2S3IRB70.0A0A2S3IRB7_9POAL; Uncharacterized protein
STRINGPavir.Ib01411.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP121433235
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.17e-33C3H family protein