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 Cagra.8874s0008.2.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family SBP
Protein Properties Length: 397aa    MW: 44125.3 Da    PI: 8.4843
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.8874s0008.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP128.13.3e-40175251177
                          --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+vsgle+rfCqqCsrfh++sefDe+krsCr+rL++hn+rrrk+q
  Cagra.8874s0008.2.p 175 RCQIDGCDLDLSTAKDYHRKHRVCEKHSKCPKVTVSGLERRFCQQCSRFHAVSEFDEKKRSCRKRLSHHNARRRKPQ 251
                          6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.103.7E-33168237IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.308173250IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.01E-37174251IPR004333Transcription factor, SBP-box
PfamPF031109.2E-31176249IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010358Biological Processleaf shaping
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
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: 397 aa     Download sequence    Send to blast
MDCNMVSSSQ WDWENLIMSN PSKTENEKKL QSTEWEFEKG EGIESIIPDF LGFERVSSGS  60
ATSFWHTAVS KSSQSTSINS SSPEVKQCKL ASQSSPGDSC SIIDFSQVKA STALEVSVAS  120
AESDLCLKLG KRTYSEELWG RNNNDISAVS MKLLTPSVVA RKKSKSCGQS MQVPRCQIDG  180
CDLDLSTAKD YHRKHRVCEK HSKCPKVTVS GLERRFCQQC SRFHAVSEFD EKKRSCRKRL  240
SHHNARRRKP QGIFPLNPER VYDRRQHTSM LWNGLSLNTR SEETYAWGTT YETKPTQMES  300
GFTLSFQRGN GPEEQLFASS SRSFSVFQSS GGFSAGKSNV QLPGKGLGEC SGGLHESQDF  360
YSALSLLSTS SEPRGTKHNP VVEPQPIFGT YPTHFI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-261762491184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1231248KKRSCRKRLSHHNARRRK
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
PlantRegMapCagra.8874s0008.2.p
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ0116370.0AJ011637.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 10.
GenBankAY1420280.0AY142028.1 Arabidopsis thaliana At1g27370/F17L21_16 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006304999.10.0squamosa promoter-binding-like protein 10
RefseqXP_023646039.10.0squamosa promoter-binding-like protein 10
RefseqXP_023646040.10.0squamosa promoter-binding-like protein 10
SwissprotQ8S9L00.0SPL10_ARATH; Squamosa promoter-binding-like protein 10
TrEMBLR0GPP40.0R0GPP4_9BRAS; Uncharacterized protein
STRINGCagra.8874s0008.1.p0.0(Capsella grandiflora)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G27370.40.0squamosa 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]