PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bradi3g41250.1.p
Common NameBRADI_3g41250, LOC100844798
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family SBP
Protein Properties Length: 426aa    MW: 44358.1 Da    PI: 7.4404
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g41250.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP128.62.3e-40120196278
                       -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+  rfCqqCsrfh l+efDe+krsCr+rL++hn+rrrk+q+
  Bradi3g41250.1.p 120 CAVDGCRADLSRCRDYHRRHKVCEAHSKTPVVAVAGRDMRFCQQCSRFHLLTEFDETKRSCRKRLDGHNRRRRKPQP 196
                       **************************************************************************987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.1E-34111181IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.855117194IPR004333Transcription factor, SBP-box
SuperFamilySSF1036127.19E-38118199IPR004333Transcription factor, SBP-box
PfamPF031104.2E-30120193IPR004333Transcription 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: 426 aa     Download sequence    Send to blast
MDWDLKMPAA GAGAAWDLAE LEQGGGGGGP SADGIAAPAA AAGGGGRAEC SVDLKLGGLG  60
ESGGGQAQAQ AQDSSTRGGK APVAASAPAP GKRPRAAAGS SSSSGGGGGG GGQGQQCPSC  120
AVDGCRADLS RCRDYHRRHK VCEAHSKTPV VAVAGRDMRF CQQCSRFHLL TEFDETKRSC  180
RKRLDGHNRR RRKPQPDPMN SASFMTSQQG TRFSPFPNPR PEQSWPGIIK TEESPYYAHQ  240
IPIGISNRQH FGGSTSTYAK EGRRFPFLQE GEINFATGVT LEPSVCQPHP RTAAPPDSSG  300
SSKMFSDGLT PVLDSDCALS LLSAPANSSG IDVGRMVQVQ QNEHIPIAQP LVSSLQFSSS  360
SWFARSQAAT GAVPPTGFSC PVVENEQLNT VLSSDNNEMN YSGIFHVGGE GSSDGAPPSL  420
PFTWQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-261201931184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1176193KRSCRKRLDGHNRRRRKP
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
PlantRegMapBradi3g41250.1.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_003574825.10.0squamosa promoter-binding-like protein 16
SwissprotQ6YZE81e-158SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBLI1I8X20.0I1I8X2_BRADI; Uncharacterized protein
STRINGBRADI3G41250.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP17553795
Representative plantOGRP9717230
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.12e-41SBP 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]