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.2NG027900.1.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 AP2
Protein Properties Length: 636aa    MW: 66829.3 Da    PI: 7.7402
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG027900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP227.95.7e-09271311136
                  AP2   1 sgykGVrwdkkrgrWvAeIrd.pse.ng..kr.krfslgkf 36 
                          s+y+GV++++++gr++A+++d  ++  g  ++ ++++lgk+
  Pavir.2NG027900.1.p 271 SQYRGVTRHRWTGRYEAHLWDnSCKkEGqtRKgRQVYLGKH 311
                          78*******************988886678446*******8 PP
2AP247.54.4e-15389438355
                  AP2   3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          y+GV+++++ grW A+I  +s    +k  +lg+f t eeAa+a++ a+ k++g
  Pavir.2NG027900.1.p 389 YRGVTRHHQHGRWQARIGRVSG---NKDLYLGTFSTQEEAAEAYDIAAIKFRG 438
                          9***************999754...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.72E-16271352No hitNo description
SuperFamilySSF541711.77E-11271354IPR016177DNA-binding domain
PfamPF008477.6E-5271312IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.3E-10272353IPR001471AP2/ERF domain
SMARTSM003805.5E-22272358IPR001471AP2/ERF domain
PROSITE profilePS5103215.909272352IPR001471AP2/ERF domain
PRINTSPR003676.9E-5273284IPR001471AP2/ERF domain
PRINTSPR003676.9E-5334354IPR001471AP2/ERF domain
CDDcd000181.58E-22387448No hitNo description
SuperFamilySSF541711.44E-17387447IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.104.3E-18388446IPR001471AP2/ERF domain
SMARTSM003802.9E-33388452IPR001471AP2/ERF domain
PROSITE profilePS5103219.19388446IPR001471AP2/ERF domain
PfamPF008479.2E-10389438IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 636 aa     Download sequence    Send to blast
MTNNSSNSND NGTNAAASGW LGFSLSPHMA SAMDDRHHHH VQQQQHQQHG LFFPSVTAAA  60
AAAAAYGLGA GDAVATSASP YYTPQLASMP LKSDGSLCIM EALRRSDQDH HGPKLEDFLG  120
AAQSQAMALS LDNAAAASSL YYYGDAGGGG HHLGSSFLQP CADLYGGPSA ASLVGDDEAA  180
AAATAMASWV AARAESGVLS AAGQHQHHHA LALSMSSGSL MSSCVAAHPG EYGMVAGAAM  240
DGGRKRGGAA GGQKQPVHHR KSIDTFGQRT SQYRGVTRHR WTGRYEAHLW DNSCKKEGQT  300
RKGRQVYLGK HSLLHCQRAA AHGGYDMEEK AARAYDLAAL KYWGPSTHIN FPLETYQEEL  360
EEMKNMTRQE YVAHLRRKSS GFSRGASMYR GVTRHHQHGR WQARIGRVSG NKDLYLGTFS  420
TQEEAAEAYD IAAIKFRGLN AVTNFDITRY DVDKIMASNT LLPGDLARRK KDGEAPVADD  480
VGGVVTAAAA ALVQAGNGSA ADTWKVAAAL AAAPRAAEHA HAHHDVLSGA EAFSVLHDLV  540
TAADGGAGAA QHMPMSSASS LVTSLGNSRE ASPDRGGGLS MLFSKPPPAQ HQAAINNKPM  600
SPLMPLGSWA SPVSARAAAS VSIAHMPVFA AWTDA*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed at the base of the stem. Expressed in stems. Expressed a low levels in crown roots and seeds (PubMed:21807632). Expressed in the stem region where adventitious (crown) root initiation occurs (PubMed:21481033). {ECO:0000269|PubMed:21481033, ECO:0000269|PubMed:21807632}.
Functional Description ? help Back to Top
Source Description
UniProtActs as positive regulator of adventitious (crown) root formation by promoting its initiation. Promotes adventitious root initiation through repression of cytokinin signaling by positively regulating the two-component response regulator RR1. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1. {ECO:0000269|PubMed:21481033}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG027900.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by auxin. {ECO:0000269|PubMed:21481033}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0882630.0BT088263.1 Zea mays full-length cDNA clone ZM_BFc0105N21 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025803955.10.0AP2-like ethylene-responsive transcription factor CRL5
SwissprotQ84Z020.0CRL5_ORYSJ; AP2-like ethylene-responsive transcription factor CRL5
TrEMBLA0A3L6QR480.0A0A3L6QR48_PANMI; Uncharacterized protein
STRINGPavir.Ba03911.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP94838133
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37750.11e-121AP2 family protein
Publications ? help Back to Top
  1. Kitomi Y, et al.
    The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling.
    Plant J., 2011. 67(3): p. 472-84
    [PMID:21481033]
  2. Li P,Xue H
    Structural characterization and expression pattern analysis of the rice PLT gene family.
    Acta Biochim. Biophys. Sin. (Shanghai), 2011. 43(9): p. 688-97
    [PMID:21807632]