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.2NG159400.1.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: 528aa    MW: 54832.9 Da    PI: 9.3485
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG159400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.2e-057193123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         ++C+ C+k F r  nL+ H r H
  Pavir.2NG159400.1.p 71 FVCEVCNKGFQREQNLQLHRRGH 93
                         89*******************88 PP
2zf-C2H213.20.00026147169123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC +C+k++  +s+ k H +t+
  Pavir.2NG159400.1.p 147 WKCDKCNKRYAVQSDWKAHSKTC 169
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.607.1E-67093IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.08E-77093No hitNo description
PROSITE profilePS5015711.0947193IPR007087Zinc finger, C2H2
PfamPF121713.4E-57193IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.00417193IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807393IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.9E-5135168IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.08E-7142167No hitNo description
SMARTSM00355110147167IPR015880Zinc 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: 528 aa     Download sequence    Send to blast
MAAASSAPFF GLGDTQMQPP QGPSLQQNSA AAAPGAAAAP PKKKRNQPGN PNPDAEVIAL  60
SPRTLLATNR FVCEVCNKGF QREQNLQLHR RGHNLPWKLK QKNPKEARRR VYLCPETTCV  120
HHDPSRALGD LTGIKKHYCR KHGEKKWKCD KCNKRYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAR ESAQMPPLGA GLYVGSGSMS LGLSGAAAQM HGFADHAGQS  240
SSAAAAAAAA QFDHIMPPSS GPSLFRSQVS ASSSSFFLGG GAPSPAQDFS DDPQGGQGSS  300
LLHSKSPFQG LMQLPEQQHQ PGSSNANGNL LNLGFFSGNG GGSARGQDAR LVIQDQFNGG  360
GGGGNADHSS VMASMGSHLS CSSFPSSLYN SSPSAGLAQN SATALLMKAA QMGSTSSAQN  420
GPSALLRAAG FSAASGQGTS RAAGEGTSHE AHFHDLIMNS LAGGSGGGGG FSGGGAGFGA  480
VDDGKLSTRD FLGVGRGAMA PPGLRYSAHW TRPTTEVIDR CDDRIRE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-33143208368Zinc finger protein JACKDAW
5b3h_F3e-33143208368Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.45240.0callus| leaf| root| stem
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:24821766, ECO:0000305|PubMed:19726569}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG159400.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY7548650.0AY754865.1 Zea mays INDETERMINATE-related protein 7 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004957598.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_004957599.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_004957600.10.0protein indeterminate-domain 5, chloroplastic
SwissprotQ8GYC11e-121IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLK3ZSG00.0K3ZSG0_SETIT; Uncharacterized protein
STRINGPavir.Ba01478.1.p0.0(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
AT2G02080.11e-107indeterminate(ID)-domain 4
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]