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 Oropetium_20150105_14684A
Organism
Oropetium thomaeum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium
Family SBP
Protein Properties Length: 397aa    MW: 41953.8 Da    PI: 8.6811
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_14684AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP128.23.1e-4069145278
                                -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 efDe+krsCr+rL++hn+rrrk+++
  Oropetium_20150105_14684A  69 CAVDGCKADLSKCRDYHRRHKVCEAHSKTPVVVVAGREMRFCQQCSRFHLLVEFDETKRSCRKRLDGHNRRRRKPRQ 145
                                **************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.9E-3461130IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.10366143IPR004333Transcription factor, SBP-box
SuperFamilySSF1036128.11E-3867148IPR004333Transcription factor, SBP-box
PfamPF031107.5E-3169142IPR004333Transcription 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: 397 aa     Download sequence    Send to blast
MPPSAAVRRP PGGPSECELD HGADRRSREP ALGGKAPAAS ASPGLAAGAA NSKRPRPACG  60
AGQQQCPSCA VDGCKADLSK CRDYHRRHKV CEAHSKTPVV VVAGREMRFC QQCSRFHLLV  120
EFDETKRSCR KRLDGHNRRR RKPRQDPMTS ANFITGQQGT RFSPFTTPRP EANWPAIIKT  180
EESPYYSHQI PLGSSSSNRQ HFVGSTSAYT KDGRRFPFLQ EGEISFATGV VLEAAASVCQ  240
PLLLKTVAAP PESSGGGGGG SKMFSDDGLT RVLDSDCALS LLSAPANSSG IDVGRMVRPA  300
EQVPMAAQAL VSGLQFGSAS WFSRPHQAAA ATAAAGAAVS TTTTTTGLEN EQQQQQLNTT  360
VLGSTDNEMN YNGMFHVGGG EGSSDGTSSS LPFSWQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A9e-27691421184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
15256KRPRP
2125142KRSCRKRLDGHNRRRRKP
3137143RRRRKPR
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
PlantRegMapOropetium_20150105_14684A
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
RefseqNP_001349189.11e-161teosinte glume architecture 1-like
RefseqXP_025819972.11e-160teosinte glume architecture 1-like
SwissprotQ6YZE81e-150SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBLA0A3Q8AHR91e-162A0A3Q8AHR9_9POAL; Squamosa-promoter binding protein-like protein
STRINGPavir.J28847.1.p1e-161(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP17553795
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.11e-44SBP 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]