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.2NG419300.2.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 SBP
Protein Properties Length: 436aa    MW: 45661 Da    PI: 7.5181
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG419300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP129.31.4e-40111187278
                          -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                  SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                          C v+gC+adls++++yhrrhkvCe+hsk+pvv+v+g+e rfCqqCsrfh l efD++krsCr+rL++hn+rrrk+q+
  Pavir.2NG419300.2.p 111 CAVDGCKADLSKCRDYHRRHKVCEAHSKTPVVVVAGREMRFCQQCSRFHLLVEFDDAKRSCRKRLDGHNRRRRKPQT 187
                          **************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.6E-35103172IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.983108185IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.27E-38109190IPR004333Transcription factor, SBP-box
PfamPF031109.9E-31111184IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 436 aa     Download sequence    Send to blast
MDWDLKMPVS WDLADLEHDA VPAIATAAAA PRAAASSGIA AAAAASARGA PSRAECSVDL  60
KLGGLGEFGA ADRMKEPVSA GAAAAAVPSA SPMKRPRSGA SGGGGAQCPS CAVDGCKADL  120
SKCRDYHRRH KVCEAHSKTP VVVVAGREMR FCQQCSRFHL LVEFDDAKRS CRKRLDGHNR  180
RRRKPQTDTM NSGTFMTSQQ GTRFSSFPAP RPEPSWSGVI KSEDSSYYTH HQVLSTRPHF  240
AGSTPAYSNS KEGRRFPFLQ DGDQVSFSAG AAAALEVSAV CQPLLKTVAP PPESSSSNKI  300
FSDGLTPVLD SDCALSLLSS PANSSSVDVS RMVQPTEHIP MAQPLVPSLH PQQQQQHQFG  360
SPPGWFACSQ AGSSGVASAA GAGGFACPPS VESEQLNTVL VPGSDGHEMN YHGIFHVGGE  420
GSSDGTSPSL PFSWQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-2799184184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1167184KRSCRKRLDGHNRRRRKP
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in young panicles. {ECO:0000269|PubMed:16861571}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG419300.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305|PubMed:16861571}.
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_025803089.10.0squamosa promoter-binding-like protein 18 isoform X2
SwissprotQ0J0K11e-167SPL18_ORYSJ; Squamosa promoter-binding-like protein 18
TrEMBLA0A2T8KRA50.0A0A2T8KRA5_9POAL; Uncharacterized protein
STRINGPavir.Ba01534.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.17e-42SBP family protein