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.3NG108400.1.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 CPP
Protein Properties Length: 689aa    MW: 76622.7 Da    PI: 8.9008
Description CPP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3NG108400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCR23.61.1e-075476224
                  TCR  2 ekkgCnCkkskClkkYCeCfaag 24
                         +kk CnC++s+Clk+YCeCfa+ 
  Pavir.3NG108400.1.p 54 KKKCCNCRNSRCLKLYCECFARS 76
                         799*****************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM011140.00245390IPR033467Tesmin/TSO1-like CXC domain
PfamPF036382.4E-45576IPR005172CRC domain
PROSITE profilePS513755.93177211IPR002885Pentatricopeptide repeat
PROSITE profilePS513756.862247277IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.106.1E-8252382IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS5137511.794278312IPR002885Pentatricopeptide repeat
PfamPF130412.1E-11278326IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007563.7E-7280313IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.831313347IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.202348378IPR002885Pentatricopeptide repeat
PROSITE profilePS5137511.433379413IPR002885Pentatricopeptide repeat
PfamPF130414.3E-12379426IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.7E-7381414IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.267414444IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.114450484IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.106.1E-8451545IPR011990Tetratricopeptide-like helical domain
PfamPF015350.039453474IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.481517551IPR002885Pentatricopeptide repeat
PfamPF144321.4E-35554678IPR032867DYW domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 689 aa     Download sequence    Send to blast
MQLFKEDPRD DKRKSHCEGE KDGSAEKKKQ IFMLLKSHQN HGQDSMKGTI TPTKKKCCNC  60
RNSRCLKLYC ECFARSWDFK AKWCIGFPIS RRLRSPPSSQ FEPSSFSMNL HHRRSPEYNA  120
LLLAGPRLGP LKQAHARLVV AGHGSSLPLT TKLATLAVTA GAASYAHLLA ATHPAPDSFL  180
FCTLTRAAAH RGLPAAALTF YRSLLTAALP FSSFAFTAVA KACADLSTLR VGMAVHAHAI  240
LLGFGSDQFV QTALVVLYSK CGQLAVARKL FDAIRDRSVV AWNAMISGYE QNGLAERAIE  300
VYKEMQMAGE APDSATFVAT LSACAKGCAL DLGREVERRI VSERMDMSVF LGAALVNMYV  360
RCGLVNKARE WFDKLQERNV VTWTSMIAGY GMHGHGHEAI KLFHLMRCEG PPPNDVTFVA  420
VLSACAHAGL VSEGRDAFAT MKSVYGLVPR AEHYCSMVDM YGRAGLLDDA MQFIHDSIPG  480
EPGPEVWTAI LGACKMHKNF NLGVEVAERL IALEPENPSH RVLLSNIYAL SGKMNHVEKV  540
RNTMIKRRLK KQIGYSLIEI GGIAHLFRMG EKSHPQTRDI YQYLEELIHR ITDAGYVPET  600
DSVLHELEKE EREFALRYHG EKLAVSFGLM MSAGSTAPIR IIKNLRICGD CHLAIKYMSV  660
VENREIIVRD KHRFHHFKDG KCSCQEYW*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5iww_D5e-5611854414330PLS9-PPR
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11115KRKSH
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3NG108400.1.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_025815945.10.0pentatricopeptide repeat-containing protein At2g33760
SwissprotP930110.0PP182_ARATH; Pentatricopeptide repeat-containing protein At2g33760
TrEMBLA0A2S3HRR80.0A0A2S3HRR8_9POAL; Uncharacterized protein
TrEMBLA0A2T7DGG00.0A0A2T7DGG0_9POAL; Uncharacterized protein
STRINGPavir.J37430.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP466
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G64100.21e-09pentatricopeptide (PPR) repeat-containing protein
Publications ? help Back to Top
  1. Aubourg S,Boudet N,Kreis M,Lecharny A
    In Arabidopsis thaliana, 1% of the genome codes for a novel protein family unique to plants.
    Plant Mol. Biol., 2000. 42(4): p. 603-13
    [PMID:10809006]
  2. Lurin C, et al.
    Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis.
    Plant Cell, 2004. 16(8): p. 2089-103
    [PMID:15269332]