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.4NG178700.2.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: 233aa    MW: 24114.6 Da    PI: 9.6716
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4NG178700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.9e-073257227
                         -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                         kt+ C+ +     Ck G++C+FaHg+
  Pavir.4NG178700.2.p 32 KTRMCNKYNTAEGCKWGSKCHFAHGE 57
                         9***********************96 PP
2zf-CCCH382.8e-12198223127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +kt+lC +f++ G C +GdrC+FaHg+
  Pavir.4NG178700.2.p 198 FKTKLCENFSK-GSCTFGDRCHFAHGE 223
                          69*********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.1E-142662IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.22E-82961IPR000571Zinc finger, CCCH-type
SMARTSM003562.33057IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.853058IPR000571Zinc finger, CCCH-type
SuperFamilySSF547912.34E-1499171IPR004088K Homology domain, type 1
SMARTSM003223.8E-10101171IPR004087K Homology domain
Gene3DG3DSA:3.30.1370.101.7E-15102170IPR004088K Homology domain, type 1
PROSITE profilePS5008414.802102166IPR004088K Homology domain, type 1
PfamPF000132.6E-11104167IPR004088K Homology domain, type 1
CDDcd001052.05E-13104166No hitNo description
Gene3DG3DSA:4.10.1000.104.5E-17196229IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010317.084197224IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-7197223IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.19E-9197228IPR000571Zinc finger, CCCH-type
PfamPF006429.8E-10198223IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 233 aa     Download sequence    Send to blast
MTNLGGPPVP APPGRIPMGP GAPDGPPSPA MKTRMCNKYN TAEGCKWGSK CHFAHGEREL  60
GKPMQMDNSM GVPPMGPGPN GHFMPPPMPV PDMVPPSTFG ASATAKISVD ASLAGAIIGK  120
GGTNTKHISR VTGAKLAIRD NEADPNLKNI ELEGTFDQIK HASAMVTELI VRISGKAPLQ  180
AKNNPGRGSH AGGAGSNFKT KLCENFSKGS CTFGDRCHFA HGESELRKPA AA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.45820.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4NG178700.2.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
GenBankBT0635370.0BT063537.1 Zea mays full-length cDNA clone ZM_BFc0074M08 mRNA, complete cds.
GenBankBT0639250.0BT063925.1 Zea mays full-length cDNA clone ZM_BFc0120K02 mRNA, complete cds.
GenBankBT0878740.0BT087874.1 Zea mays full-length cDNA clone ZM_BFb0279J08 mRNA, complete cds.
GenBankEU9525980.0EU952598.1 Zea mays clone 1284141 mRNA sequence.
GenBankEU9680080.0EU968008.1 Zea mays clone 312808 zinc finger C-x8-C-x5-C-x3-H type family protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025810913.11e-141zinc finger CCCH domain-containing protein 44-like
SwissprotQ69XQ31e-132C3H44_ORYSJ; Zinc finger CCCH domain-containing protein 44
TrEMBLA0A3L6S1111e-146A0A3L6S111_PANMI; Zinc finger CCCH domain-containing protein 44-like isoform X1
STRINGPavir.Db00748.1.p1e-168(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06770.11e-53C3H family protein