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 XP_009102986.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family SBP
Protein Properties Length: 390aa    MW: 43666.6 Da    PI: 8.4862
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009102986.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP128.52.6e-40171247177
                     --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
             SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                     +Cq++gCe dls+ak+yhr+h+vCe hsk+p+v+vsg+e+rfCqqCsrfh++sefDe+krsCr+rL++hn+rrrk+q
  XP_009102986.1 171 RCQIDGCELDLSSAKDYHRKHRVCENHSKCPKVTVSGIERRFCQQCSRFHAVSEFDEKKRSCRKRLSHHNARRRKPQ 247
                     6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.106.5E-33164233IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.317169246IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.14E-37170247IPR004333Transcription factor, SBP-box
PfamPF031108.8E-31172245IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 390 aa     Download sequence    Send to blast
MDCNMRSPFL WDLENLILPN SSKTENDKDQ LTTATEWETE KGEGIESMFP CFNGLERVSN  60
CSTTSLWHTP VSKSSQSTST NSSSPGVKQR MLASESSPGD SCCNIQVKAS VASAESDLSL  120
KLGKRTYSEE LWGRSNNNDI SAVSVKLLTP PSVVSRKKSK SSCGQSMQVP RCQIDGCELD  180
LSSAKDYHRK HRVCENHSKC PKVTVSGIER RFCQQCSRFH AVSEFDEKKR SCRKRLSHHN  240
ARRRKPQGVF PFNPDRVYDR RQHTNMLWNG LSLDTRSEEK FAWETTYDIK PTQTESGFTL  300
SFQRGNGSEQ QLFASSNHSY STYQTSGGLS AGKPKFQLHG QGVGEYSGVL HESQEFHRAL  360
SLLSTSSSDH LVQPHAQPLS LLFSYDGVPK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A4e-261722451184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1227244KKRSCRKRLSHHNARRRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.215920.0bud| flower
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed constitutively during plant development, weak increase during flowering. {ECO:0000269|PubMed:10524240, ECO:0000269|PubMed:14573523}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00161DAPTransfer from AT1G27360Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009102986.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305|PubMed:12202040}.
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_009102986.10.0PREDICTED: squamosa promoter-binding-like protein 11
RefseqXP_018508647.10.0PREDICTED: squamosa promoter-binding-like protein 11
SwissprotQ9FZK00.0SPL11_ARATH; Squamosa promoter-binding-like protein 11
TrEMBLM4EMM00.0M4EMM0_BRARP; Uncharacterized protein
STRINGBra030040.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM50041653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G27360.40.0squamosa promoter-like 11
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Stief A, et al.
    Arabidopsis miR156 Regulates Tolerance to Recurring Environmental Stress through SPL Transcription Factors.
    Plant Cell, 2014. 26(4): p. 1792-1807
    [PMID:24769482]
  3. Liu J, et al.
    The RhoGAP SPIN6 associates with SPL11 and OsRac1 and negatively regulates programmed cell death and innate immunity in rice.
    PLoS Pathog., 2015. 11(2): p. e1004629
    [PMID:25658451]
  4. Xu M, et al.
    Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(8): p. e1006263
    [PMID:27541584]