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.6KG353000.1.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: 402aa    MW: 43494.8 Da    PI: 6.1817
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG353000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.32.8e-05233252120
                          EEETTTTEEESSHHHHHHHH CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHi 20 
                          ++Cp C k+F+r  n++ H+
  Pavir.6KG353000.1.p 233 FSCPVCYKTFNRYNNMQMHM 252
                          89*****************9 PP
2zf-C2H212.60.00041319339323
                          ETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   3 CpdCgksFsrksnLkrHirtH 23 
                          C +Cgk F  k + ++H +++
  Pavir.6KG353000.1.p 319 CRKCGKAFAVKGDWRTHEKNC 339
                          *****************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576678.42E-5229255No hitNo description
SMARTSM003550.45233255IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.1E-6233252IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.743233260IPR007087Zinc finger, C2H2
PROSITE patternPS000280235255IPR007087Zinc finger, C2H2
SuperFamilySSF576673.03E-6301337No hitNo description
Gene3DG3DSA:3.30.160.603.3E-5304337IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035582317337IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.621317337IPR007087Zinc finger, C2H2
SMARTSM00355220343366IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009860Biological Processpollen tube growth
GO:0010500Biological Processtransmitting tissue development
GO:1990058Biological Processfruit replum development
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 402 aa     Download sequence    Send to blast
MEDPYTSFFK NPYYYYTTSF PAAPAAHLPP PLPPYTSLYP AATPQYPACF FQPQPTLPPL  60
HDSPPSPPLR EALPLLSQSP TRGAREHVAA DYDSDDDADD FPREVAGSSA TPSAARAPLF  120
ADLNCMPSCC DDGGDPMDVE AGASTDDAAV ALRIGLPAAP ANGCGGTEAD LLSGLTGRGV  180
EAEEDEECKV DTGAGDGDEM VPLGFASTPI GRLNKGQYWI PTPAQILIGP TQFSCPVCYK  240
TFNRYNNMQM HMWGHGSQYR KGPESLRGVQ PTAMLRLPCY CCAAGCRNNI DHPRARPLKD  300
FRTLQTHYKR KHGLKPFLCR KCGKAFAVKG DWRTHEKNCG KLWYCLCGSE FKHKRSLKDH  360
ARAFGHGHGA FGCNVDGLDD DDEGAVSEIE QDGAGRSSAA R*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269|PubMed:17600712}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269|PubMed:17600712, ECO:0000269|PubMed:23515580, ECO:0000269|PubMed:25039392}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG353000.1.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
GenBankFP0969070.0FP096907.1 Phyllostachys edulis cDNA clone: bphylf041f10, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025821697.10.0zinc finger protein WIP2-like
SwissprotQ9SVY11e-122ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBLA0A3L6PSC80.0A0A3L6PSC8_PANMI; Zinc finger protein WIP2-like
STRINGPavir.Fa00506.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58638170
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57670.11e-115C2H2 family protein
Publications ? help Back to Top
  1. Crawford BC, et al.
    Plant development. Genetic control of distal stem cell fate within root and embryonic meristems.
    Science, 2015. 347(6222): p. 655-9
    [PMID:25612610]
  2. Boex-Fontvieille E, et al.
    An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence.
    Front Plant Sci, 2016. 7: p. 1246
    [PMID:27625656]