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.1NG421500.1.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 C3H
Protein Properties Length: 429aa    MW: 46063.2 Da    PI: 7.7557
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG421500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.25.1e-07106128426
                          ---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                          ++C++f+++  C+yG+rC++ H+
  Pavir.1NG421500.1.p 106 RPCKYFLAGTDCSYGERCRYPHS 128
                          79******55**********887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.2022854IPR000571Zinc finger, CCCH-type
SMARTSM003560.152953IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.802102130IPR000571Zinc finger, CCCH-type
SMARTSM003560.005102129IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-4106128IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.5E-4106128IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.96E-5107138IPR000571Zinc finger, CCCH-type
SuperFamilySSF509781.76E-42134421IPR017986WD40-repeat-containing domain
SMARTSM003201.6E-6134173IPR001680WD40 repeat
Gene3DG3DSA:2.130.10.106.2E-46137421IPR015943WD40/YVTN repeat-like-containing domain
PfamPF004001.4E-6139173IPR001680WD40 repeat
PROSITE profilePS5029421.595141390IPR017986WD40-repeat-containing domain
PROSITE profilePS5008214.151141182IPR001680WD40 repeat
PRINTSPR003202.7E-7160174IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780160174IPR019775WD40 repeat, conserved site
SMARTSM00320390176211IPR001680WD40 repeat
SMARTSM003205.2213250IPR001680WD40 repeat
SMARTSM003200.0093257294IPR001680WD40 repeat
PfamPF004000.029262294IPR001680WD40 repeat
PROSITE profilePS5008211.143264303IPR001680WD40 repeat
PROSITE patternPS006780281295IPR019775WD40 repeat, conserved site
PRINTSPR003202.7E-7281295IPR020472G-protein beta WD-40 repeat
SMARTSM003202.1E-4297334IPR001680WD40 repeat
PfamPF004000.0093299333IPR001680WD40 repeat
PRINTSPR003202.7E-7321335IPR020472G-protein beta WD-40 repeat
SMARTSM0032020338381IPR001680WD40 repeat
SMARTSM0032026384421IPR001680WD40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 429 aa     Download sequence    Send to blast
MDIETDGRFG NKRVHNRLGP GSGGAPSSTN GKVCNYWRAG RCNRFPCPYL HSELPEAAAP  60
PKRPAGPGGN VWRNPNTGGR GGGGHNRWGR GPGGGSGAAS HRPPDRPCKY FLAGTDCSYG  120
ERCRYPHSYC ISDSITMLAP LKGHDKGVTG IALPTGSDKL YSGSKDGTVR MWDCQTGQCA  180
GVITMGREVG CMISEGPWLF VGIPDAVKVW NMQTAAEMNL TGPTGQVYAL AVASELLFAA  240
TQDGRILAWR FSAATNCFEP AASLDGHKLA VVSLIVGGMR LYSASMDKTI RVWDLATLQC  300
IQTLSDHTDV VMSVLCWDQF LLSCSLDQTI KVWAATESGN LEVTYTHKEE QGALTLSGMP  360
DAQSKPVLLC SLNDNTVRLY DLPSFSDRGR IFSKQEIRAI QMGPGGLFFT GDGTGELKVW  420
QWVDAAQT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A3e-201384208323Tako8
6g6n_A3e-201384208323Tako8
6g6n_B3e-201384208323Tako8
6g6n_C3e-201384208323Tako8
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17783GGRGGGG
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.85051e-116callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG421500.1.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
GenBankBT0345660.0BT034566.1 Zea mays full-length cDNA clone ZM_BFb0001E08 mRNA, complete cds.
GenBankEU9720870.0EU972087.1 Zea mays clone 374674 nucleic acid binding protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025806289.10.0zinc finger CCCH domain-containing protein 17-like
SwissprotQ0DYP50.0C3H17_ORYSJ; Zinc finger CCCH domain-containing protein 17
TrEMBLA0A3L6QCM90.0A0A3L6QCM9_PANMI; Nucleic acid binding protein
STRINGPavir.Aa00915.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20263442
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51980.10.0C3H 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]