PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5NG403900.1.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: 402aa    MW: 42998.8 Da    PI: 8.346
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG403900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.21.8e-15326351126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          +ktelC+ + +tG C+yGd+C+FaHg
  Pavir.5NG403900.1.p 326 FKTELCNKWEETGACPYGDQCQFAHG 351
                          79***********************9 PP
2zf-CCCH17.28.9e-06364389126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ykt  Cr  +++  C+yG rC+F H+
  Pavir.5NG403900.1.p 364 YKTQVCRMVLAGEVCPYGHRCHFRHS 389
                          99*********66**********998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.5E-18322358IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.22E-10323357IPR000571Zinc finger, CCCH-type
SMARTSM003567.2E-10325352IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.601325353IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-12326351IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-11359389IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.58E-8360390IPR000571Zinc finger, CCCH-type
SMARTSM003564.5E-5363390IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.535363391IPR000571Zinc 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: 402 aa     Download sequence    Send to blast
MLPQLYKARA PRVPSTLQLQ VASRSSIVLS STPAAPIGWF VQEFAEVEAA AMQEALISPG  60
NAGSLRSALE LKPFAFGDQR LASPRYLNLA CGDDAVDALF RCSSPFSPSF GFSSPSPLAA  120
SSVSLSPSSS ASLVDDCDDA AAAAAAADAA TGHRLQLARL ALQYQEVADR YDLCLARLAE  180
AADEAAALRR ENAELRVANG DLTRRLALLS GIGKQAAAAA IADEVRRLRF VDQKAVAVAK  240
ERAPEKLAVL PKSISVRSNE YLKMKQLNQP PATPAANNRN ARSSNATTPS SRAYTGDGGG  300
RKGEETIKEQ HAAGGTELEV CNQGMFKTEL CNKWEETGAC PYGDQCQFAH GVAELRPVIR  360
HPRYKTQVCR MVLAGEVCPY GHRCHFRHSL TPAERLLLPR P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A7e-23326389467Butyrate response factor 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG403900.1.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
GenBankBT0421470.0BT042147.1 Zea mays full-length cDNA clone ZM_BFb0146F09 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004969303.11e-167zinc finger CCCH domain-containing protein 9 isoform X2
SwissprotA2ZVY51e-120C3H9_ORYSJ; Zinc finger CCCH domain-containing protein 9
TrEMBLK3XJJ01e-166K3XJJ0_SETIT; Uncharacterized protein
STRINGPavir.Ea02238.1.p1e-170(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27753784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.18e-47C3H family protein