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.6KG404500.4.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: 530aa    MW: 54821.3 Da    PI: 9.1826
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG404500.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.3e-056183123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         ++C+ C+k F r  nL+ H r H
  Pavir.6KG404500.4.p 61 FVCEVCNKGFQREQNLQLHRRGH 83
                         89*******************88 PP
2zf-C2H213.20.00026137159123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC +C+k++  +s+ k H +t+
  Pavir.6KG404500.4.p 137 WKCDKCNKRYAVQSDWKAHSKTC 159
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.17E-76083No hitNo description
Gene3DG3DSA:3.30.160.607.2E-66083IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00416183IPR015880Zinc finger, C2H2-like
PfamPF121713.4E-56183IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015711.0946183IPR007087Zinc finger, C2H2
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.9E-5125158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.17E-7132157No hitNo description
SMARTSM00355110137157IPR015880Zinc 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: 530 aa     Download sequence    Send to blast
MAAAHLFGLG DAQTMQPPLP QQAAPPPPAA APALKKKRNQ PDPDAEVIAL SPKTLLATNR  60
FVCEVCNKGF QREQNLQLHR RGHNLPWKLK QKNPKETRRR VYLCPEPSCV HHDPSRALGD  120
LTGIKKHYCR KHGEKKWKCD KCNKRYAVQS DWKAHSKTCG TREYRCDCGT LFSRRDSFIT  180
HRAFCDALAQ ESARAPPIGA GMYGSGGMAL GLSGLAASQL HSFQDQQAHS SAATAITGNP  240
AAQFEHLMPS SAGSPAFRGA QPASSSSSPF YLGGAEDGHQ SQPGHTSLLH GKPAFHGLMQ  300
LPEQHGQPGS NGLLNLGFFS GASSGQDARL VFPDQFNGAA GGNGRGDGGE HGNSGANTES  360
AAIFSGNNLM GNQMGVGGGG GFSSSLYNST ETVAPPQMSA TALLQKAAQM GATTSGAGGG  420
SVNSLLRGLG SGGALNGRPA GAAGFMAGES SSSRSTCQAE NESQFRDLMN SLAASGSGGF  480
PGMDDGKLST RDFLGVGGGV VRSMGGAVGL PLRHGAAGIG MGSLDPEMK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-34133194364Zinc finger protein JACKDAW
5b3h_F5e-34133194364Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.45240.0callus| leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:22898356, ECO:0000269|PubMed:24821766}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG404500.4.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_025821062.10.0protein indeterminate-domain 5, chloroplastic-like isoform X2
SwissprotQ9ZUL31e-120IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A3L6PM370.0A0A3L6PM37_PANMI; INDETERMINATE-related protein 1
STRINGPavir.Fa00016.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.11e-108indeterminate(ID)-domain 5
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]