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 Dca4750.1
Organism
Dianthus caryophyllus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus
Family SBP
Protein Properties Length: 378aa    MW: 40910.4 Da    PI: 8.7611
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Dca4750.1genomeDCAView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP133.56.9e-4291167278
                -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
        SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                C v+gC+adls++++yhrrhkvCe+hsk+p v++ g+eqrfCqqCsrfh+l efD++krsCr+rL++hn+rrrk+q+
  Dca4750.1  91 CLVDGCNADLSKCRDYHRRHKVCEMHSKTPRVTIGGHEQRFCQQCSRFHSLGEFDDGKRSCRKRLEGHNRRRRKPQP 167
                **************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.102.5E-3484152IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.96688165IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.22E-3989170IPR004333Transcription factor, SBP-box
PfamPF031104.7E-3191164IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048653Biological Processanther development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 378 aa     Download sequence    Send to blast
MGYNPKTAYC NLAELEKGGL ATIFGSNSLA QDKANEESLV DLTLGTLSDF GKALPNSFRD  60
HTASLMDSFS SPTGSSKRAR TPSSGGHMVS CLVDGCNADL SKCRDYHRRH KVCEMHSKTP  120
RVTIGGHEQR FCQQCSRFHS LGEFDDGKRS CRKRLEGHNR RRRKPQPEPL PMNPANFLSP  180
SQGSRFLPYS TQPMIPPASV VSTAWSRCIK SESNRTLLSN SVSSSSYSNA YGGRQFPFLQ  240
IPDTPAGQSL HHDVSSSSNN SNSQKLFCSG LNQQVIDSDR ALSLLSSSPA DTPDMGLGRI  300
LHSSPTNNTV RPALSGLHFN GFAPFATSHG HGFQTQPGSS GFVPNLRSNT SLCQDVFPSG  360
SDGSSTTGAH QTLSFSWE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-27911641184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1147164KRSCRKRLEGHNRRRRKP
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00555DAPTransfer from AT5G50570Download
Motif logo
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
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010682726.11e-169PREDICTED: squamosa promoter-binding-like protein 16
RefseqXP_010682727.11e-169PREDICTED: squamosa promoter-binding-like protein 16
SwissprotQ6YZE89e-56SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBLA0A2I7ZAU91e-164A0A2I7ZAU9_SESPO; Squamosa promoter binding protein
STRINGXP_010682726.11e-169(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.13e-50SBP 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]
  2. Wang SS,Wang CS,Tseng TH,Hou YL,Chen KY
    High-resolution genetic mapping and candidate gene identification of the SLP1 locus that controls glume development in rice.
    Theor. Appl. Genet., 2011. 122(8): p. 1489-96
    [PMID:21327937]
  3. Wang S, et al.
    Control of grain size, shape and quality by OsSPL16 in rice.
    Nat. Genet., 2012. 44(8): p. 950-4
    [PMID:22729225]
  4. Wang S, et al.
    The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and grain quality.
    Nat. Genet., 2015. 47(8): p. 949-54
    [PMID:26147620]
  5. Wang Y, et al.
    A comprehensive meta-analysis of plant morphology, yield, stay-green, and virus disease resistance QTL in maize (Zea mays L.).
    Planta, 2016. 243(2): p. 459-71
    [PMID:26474992]
  6. Lee CM, et al.
    Influence of Multi-Gene Allele Combinations on Grain Size of Rice and Development of a Regression Equation Model to Predict Grain Parameters.
    Rice (N Y), 2015. 8(1): p. 33
    [PMID:26519289]
  7. Bessho-Uehara K, et al.
    Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(32): p. 8969-74
    [PMID:27466405]