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.5NG361400.1.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 C2H2
Protein Properties Length: 198aa    MW: 21553.8 Da    PI: 10.4862
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG361400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.41.4e-065274123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         ++C++Cgk F r  nL+ H r H
  Pavir.5NG361400.1.p 52 FVCEICGKGFQRDQNLQLHRRGH 74
                         89*******************88 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.64E-85174No hitNo description
SMARTSM003550.0125274IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.2E-65274IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.6145274IPR007087Zinc finger, C2H2
PROSITE patternPS0002805474IPR007087Zinc finger, C2H2
SMARTSM0035513095125IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.6E-4118151IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.64E-8125150No hitNo description
SMARTSM00355160130150IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 198 aa     Download sequence    Send to blast
MSSSNLTSSA SGGPNAPPAA GNKRKRSLPG NPDPDAEVVA LSPATLMATN RFVCEICGKG  60
FQRDQNLQLH RRGHNLPWKL KQRGTGKEAQ RKKVYVCPEA SCVHHDPARA LGDLTGIKKH  120
FFRKHGEKKW KCDKCSKKYA VHSDWKAHSK ICGTREYKCD CGTIFSRSAS LLPISLSLSW  180
NPLPPVPVAP TGAAKNQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-22126173350Zinc finger protein JACKDAW
5b3h_F3e-22126173350Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.316051e-108root
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269|PubMed:21571950}.
UniprotTISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269|PubMed:21571950}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG361400.1.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
GenBankEU9569260.0EU956926.1 Zea mays clone 1577561 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004969020.11e-115protein indeterminate-domain 7
SwissprotQ9LVQ71e-92IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLK3XHY21e-113K3XHY2_SETIT; Uncharacterized protein
STRINGPavir.J17162.1.p1e-145(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.13e-81C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]