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.4KG408100.1.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: 642aa    MW: 70236.3 Da    PI: 6.697
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG408100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.22.2e-06113133526
                          --SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                          +C+ +   G+C+ G++C++ H+
  Pavir.4KG408100.1.p 113 ECNMYKM-GFCPNGPNCRYKHV 133
                          6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.2025481IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-55480IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.32E-65579IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-55581IPR000571Zinc finger, CCCH-type
SMARTSM003560.0182108IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.59682107IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.065108135IPR000571Zinc finger, CCCH-type
SMARTSM003560.0031110134IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.4E-4114132IPR000571Zinc finger, CCCH-type
PROSITE profilePS5088257.393243378IPR007275YTH domain
PfamPF041466.9E-44243377IPR007275YTH domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:1900363Biological Processregulation of mRNA polyadenylation
GO:2000031Biological Processregulation of salicylic acid mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003723Molecular FunctionRNA binding
GO:0004521Molecular Functionendoribonuclease activity
GO:0005516Molecular Functioncalmodulin binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 642 aa     Download sequence    Send to blast
MEDGDGGLSF DFEGGLDSAP AVGGPVPSSA DPGVGGGGGG DGPGMHGRGR GRGSYRQTVC  60
RHWLRGLCMK GDACGFLHQF DKARMPVCRF FRDFGECREP DCAYKHSYDD VKECNMYKMG  120
FCPNGPNCRY KHVKLPGPPP PVEEVLQKIL QMRSFNRYGP NRNNNYNQQG ERPQHPQGSG  180
LPNQNAAENA TATAPPTGGQ QAPMANQQPP QQQHKPNTND QVQGASNGNQ TTRIATPLPQ  240
GPSRYFIVKS CNRENLEISV QQGIWATQRS NEAKLNEAFE STENVILIFS INRTRHFQGC  300
AKMTSRIGGY IGGGNWKSAH GTAHYGRNFS MQWLKLCELS FQKTHHLRNP YNDNLPVKIS  360
RDCQELEPFI GEQLASLLYL EPDSELTAIL IAAEAKREEE KAKGVSADEA ADNQDIVLFD  420
DNEEEEEEES EEEEEGNGQE SQGRGRGRGM MWPPQMPMMR GPMMGGRFPP NMIGDGFGFG  480
GGFGMPDPFG MPRGFPPFGG PRFPVDFARG PMPGMAFPGR PPQPFPLGLD MMMGPGRGPI  540
MGGMGMGGPG RPNRPMGMAP FMPPPPPNNR LSKREQRRPG GDRGDRFETA SDQGSRGHEN  600
TGNSGAEAAR SQSGDRYGRN TLRDDDSESE EEAAPRRARK R*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-102228406218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-102228406218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-102228406218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-102228406218030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.131690.0root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4KG408100.1.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_025812461.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLA0A2S3HH220.0A0A2S3HH22_9POAL; Uncharacterized protein
STRINGPavir.Da00064.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428