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_009132698.1
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: 342aa    MW: 37435.4 Da    PI: 8.1687
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009132698.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP131.33.4e-41104181178
                     --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
             SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                     +C v+gC++d+s+++eyh+rhkvC+vhsk+pvv+++g +qrfCqqCsrfh l+efDe+k+sCr+rL++hn+rrrk+q+
  XP_009132698.1 104 ICLVDGCDSDFSNCREYHKRHKVCDVHSKTPVVTINGNNQRFCQQCSRFHGLEEFDEGKKSCRKRLDGHNRRRRKPQP 181
                     5**************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.106.6E-3297166IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.505102179IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.35E-38103184IPR004333Transcription factor, SBP-box
PfamPF031105.0E-30105178IPR004333Transcription 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: 342 aa     Download sequence    Send to blast
MDWNFKLSSG YFSEFDQESV PDLTPVDASI SFGGSSSPPR RLQPKGDLPF DLKLGRNIGH  60
SSSSSSSSAF GKTEKVISLS KLKESASEAS RSSKRTRGNN QIPICLVDGC DSDFSNCREY  120
HKRHKVCDVH SKTPVVTING NNQRFCQQCS RFHGLEEFDE GKKSCRKRLD GHNRRRRKPQ  180
PDHTDRTATF FQGSKLLDFS SSPHVFPTTS VVSPSWGSGP VSVAMANGSS YGQNQSYVGS  240
FPAKTGITFP ISSSPNSRGK QFPFLQEEED SSRMTSCIHD SDCALSLLSS SSSHLLQPQP  300
PLSLSQETVF YGSGLFENAS AVSDGSGNEA VPLPQTFPPF HW
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-2998178484squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1161178KKSCRKRLDGHNRRRRKP
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Weak increase of expression during floral induction. {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}.
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
MP00555DAPTransfer from AT5G50570Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009132698.1
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_009132698.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_009132699.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_009132700.10.0PREDICTED: squamosa promoter-binding-like protein 13A
SwissprotB9DI201e-163SP13A_ARATH; Squamosa promoter-binding-like protein 13A
SwissprotP0DI111e-163SP13B_ARATH; Squamosa promoter-binding-like protein 13B
TrEMBLM4E1W60.0M4E1W6_BRARP; Uncharacterized protein
STRINGBra022766.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41112759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.11e-141SBP family protein
Publications ? help Back to Top
  1. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  2. 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]