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.7NG428600.2.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: 229aa    MW: 23734.9 Da    PI: 9.3629
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG428600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.81.6e-073257227
                         -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                         kt+ C  +     Ck+Gd+C+FaH++
  Pavir.7NG428600.2.p 32 KTRMCTKYNTVEGCKFGDKCHFAHSE 57
                         8999999999999***********95 PP
2zf-CCCH37.44.3e-12195220127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          ykt+lC +f + GtC +G+rC+FaHg+
  Pavir.7NG428600.2.p 195 YKTKLCENFVK-GTCTFGERCHFAHGE 220
                          9**********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.3E-132962IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.79E-83061IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.5823058IPR000571Zinc finger, CCCH-type
SMARTSM003560.233057IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-43357IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.1370.102.5E-1598168IPR004088K Homology domain, type 1
SMARTSM003229.4E-1198168IPR004087K Homology domain
PROSITE profilePS5008414.25799163IPR004088K Homology domain, type 1
CDDcd001052.71E-14101163No hitNo description
SuperFamilySSF547914.53E-15101192IPR004088K Homology domain, type 1
PfamPF000134.4E-11101164IPR004088K Homology domain, type 1
Gene3DG3DSA:4.10.1000.106.5E-15193224IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-9193224IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010317.244194221IPR000571Zinc finger, CCCH-type
SMARTSM003564.0E-8194220IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-9195220IPR000571Zinc 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: 229 aa     Download sequence    Send to blast
MLNLGSPAVS APARAPADHA AVANSHPASM GKTRMCTKYN TVEGCKFGDK CHFAHSEREL  60
GKPAYMTHEA PPMGGRFGGR PEPPPPVAMG PPAGNFGASA TAKISVDASL AGGIIGKGGV  120
NTKQICRVTG VKLSIRDHES DPNLKNIELE GNFDQIKQAS NMVSDLIATI SASMPPKNPA  180
PAGGRGGAPG GRSNYKTKLC ENFVKGTCTF GERCHFAHGE NEQRRGAA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.60380.0callus| root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.7NG428600.2.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_025822781.11e-141zinc finger CCCH domain-containing protein 31
SwissprotQ7XPK11e-111C3H31_ORYSJ; Zinc finger CCCH domain-containing protein 31
TrEMBLA0A3L6PS931e-165A0A3L6PS93_PANMI; Zinc finger CCCH domain-containing protein 31
TrEMBLA0A3L6QAS71e-165A0A3L6QAS7_PANMI; Zinc finger CCCH domain-containing protein 31
STRINGPavir.Gb00110.1.p1e-166(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12130.14e-55C3H 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]