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.5NG163000.1.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: 165aa    MW: 17874.9 Da    PI: 8.4781
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG163000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH27.84.3e-096687627
                         -SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  6 CrffartGtCkyGdrCkFaHgp 27
                         C++f rtGtCkyGd+C++ H++
  Pavir.5NG163000.1.p 66 CHHFVRTGTCKYGDSCRYFHPK 87
                         ********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004512.4E-6338IPR003604Zinc finger, U1-type
SuperFamilySSF576675.83E-16448No hitNo description
PfamPF062204.9E-11537IPR013085Zinc finger, U1-C type
PROSITE profilePS5010314.8966088IPR000571Zinc finger, CCCH-type
SMARTSM003564.2E-46287IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.49E-76489IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-76587IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.0E-66586IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 165 aa     Download sequence    Send to blast
MPLGKYYCDY CDKQFQDTPA ARKRHLQGTQ HQRARALWYD SVRHQDQHGG ASSLLLPDGT  60
LAKGVCHHFV RTGTCKYGDS CRYFHPKPDG VNPSLAAPGP GPGAIVQQSN FLGSQPNFVG  120
YQAAERNSFS GNVLGAHTSW GNLPPSLQPP PEGGYPPLPF VDWG*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.30550.0callus| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG163000.1.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_004967856.11e-114zinc finger CCCH domain-containing protein 3
SwissprotQ0JP113e-79C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBLK3XMN31e-113K3XMN3_SETIT; Uncharacterized protein
STRINGPavir.Eb00973.1.p1e-119(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP126172326
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G26749.15e-28C3H 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]