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 Rsa1.0_04683.1_g00002.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family SBP
Protein Properties Length: 364aa    MW: 40744.4 Da    PI: 8.5503
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04683.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP124.73.8e-39151227177
                              --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                      SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                              +Cq++gC+ dls+ak+yhr+h+vCe hsk+p v+v g+e+rfCqqCsr h++sefDe+krsCr+rL++hn+rrrk+q
  Rsa1.0_04683.1_g00002.1 151 RCQIDGCQLDLSSAKDYHRKHRVCENHSKCPLVTVGGMERRFCQQCSRLHAVSEFDEKKRSCRKRLSHHNARRRKPQ 227
                              6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.4E-31144213IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.53149226IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.96E-36150227IPR004333Transcription factor, SBP-box
PfamPF031104.4E-30152225IPR004333Transcription 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: 364 aa     Download sequence    Send to blast
MDCNMVSSPL CDWEHLIMPN LSRTESDKKQ PSDWDIENGE GIESIFPCFA TTTTTGFLHT  60
PVSKSSQLTS TNSSSPKVTS SRGDFDQVKA LEVPAESGDL CLKLGKRSYS DEEFWGGRNN  120
NNNNDISAVS VKLLTRKKSK ASCGQSMQVP RCQIDGCQLD LSSAKDYHRK HRVCENHSKC  180
PLVTVGGMER RFCQQCSRLH AVSEFDEKKR SCRKRLSHHN ARRRKPQGVF PLHPQRVYNP  240
RQHTNMLSLN TRSQEEKYAW GTTTFDTKRE SGFTLNFQRG NGAEEQMFAS SNLSFSGGFS  300
AGKSNFLQLP GKGVGEYSGG LHETQDFYSA LSLLSTDSHG GTKHHPMVES QPIHGTFPYS  360
FHMN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-241522251184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1207224KKRSCRKRLSHHNARRRK
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
PlantRegMapRsa1.0_04683.1_g00002.1
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_018492236.10.0PREDICTED: squamosa promoter-binding-like protein 10
RefseqXP_018492237.10.0PREDICTED: squamosa promoter-binding-like protein 10
RefseqXP_018492238.10.0PREDICTED: squamosa promoter-binding-like protein 10
RefseqXP_018492239.10.0PREDICTED: squamosa promoter-binding-like protein 10
RefseqXP_018492240.10.0PREDICTED: squamosa promoter-binding-like protein 10
SwissprotQ8S9L01e-157SPL10_ARATH; Squamosa promoter-binding-like protein 10
TrEMBLA0A3N6R0F90.0A0A3N6R0F9_BRACR; Uncharacterized protein
STRINGBo7g049940.10.0(Brassica oleracea)
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
AT1G27370.41e-150squamosa 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]