PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009102985.1
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: 372aa    MW: 41419.2 Da    PI: 7.9444
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009102985.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP125.32.5e-39155231177
                     --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
             SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                     +Cq++gCe dls+ak+yhr+h+vCe hsk+pvv+v g e+rfCqqCsr h++sefDe+krsCr+rL++hn+rrrk+q
  XP_009102985.1 155 RCQIDGCELDLSSAKDYHRKHRVCESHSKCPVVTVGGFERRFCQQCSRLHAVSEFDEKKRSCRKRLSHHNARRRKPQ 231
                     6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.9E-31148217IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.616153230IPR004333Transcription factor, SBP-box
SuperFamilySSF1036124.05E-37154232IPR004333Transcription factor, SBP-box
PfamPF031105.7E-30156229IPR004333Transcription 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: 372 aa     Download sequence    Send to blast
MDCNMVSPLW DWEHLIIPNL SKTETDKKQP STTDWDIEKG EGIESILFPS FTGSSSTTGF  60
LSSQLTSTNS SSPKLKSSLG DFDQVKASTA LQVVSAESDL CLKLGKRSYS DEETWGRNNN  120
NDISAAVSVK LLTPPSVVAL KKSKSSCGQS MQVPRCQIDG CELDLSSAKD YHRKHRVCES  180
HSKCPVVTVG GFERRFCQQC SRLHAVSEFD EKKRSCRKRL SHHNARRRKP QGMFPLNPER  240
VYNGRQHTNM LWNELSLNTG SEEKYAWGTT TYETKPTQME SGFTLNFQRG SGAEEQQVFA  300
SSNLSFSAYQ TSAGKSNVQL PSKGEYSGGL YETQDFYSAL SLLSTSSDSH GTKHHPMVES  360
QPIHGIFPTH FL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-241562291184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1211228KKRSCRKRLSHHNARRRK
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009102985.1
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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009102985.10.0PREDICTED: squamosa promoter-binding-like protein 10 isoform X2
SwissprotQ8S9L01e-173SPL10_ARATH; Squamosa promoter-binding-like protein 10
TrEMBLM4EMM10.0M4EMM1_BRARP; Uncharacterized protein
STRINGBra030041.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G27370.41e-147squamosa promoter binding protein-like 10
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. Yu N,Niu QW,Ng KH,Chua NH
    The role of miR156/SPLs modules in Arabidopsis lateral root development.
    Plant J., 2015. 83(4): p. 673-85
    [PMID:26096676]
  3. 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]
  4. Gao R,Wang Y,Gruber MY,Hannoufa A
    miR156/SPL10 Modulates Lateral Root Development, Branching and Leaf Morphology in Arabidopsis by Silencing AGAMOUS-LIKE 79.
    Front Plant Sci, 2017. 8: p. 2226
    [PMID:29354153]
  5. Dotto M,Gómez MS,Soto MS,Casati P
    UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana.
    Plant Cell Environ., 2018. 41(6): p. 1394-1406
    [PMID:29447428]