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.8874s0007.1.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: 395aa    MW: 44221.2 Da    PI: 8.4285
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.8874s0007.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP127.93.9e-40175251177
                          --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                  SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                          +Cq++gC+ dls+ak+yhr+hkvCe+hsk+p v+vsgle+rfCqqCsrfh++sefDe+krsCr+rL++hn+rrrk+q
  Cagra.8874s0007.1.p 175 RCQIDGCDLDLSSAKDYHRKHKVCEKHSKCPRVTVSGLERRFCQQCSRFHAVSEFDEKKRSCRKRLSHHNARRRKPQ 251
                          6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.0E-32168237IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.368173250IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.31E-37174252IPR004333Transcription factor, SBP-box
PfamPF031101.5E-30176249IPR004333Transcription 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: 395 aa     Download sequence    Send to blast
MDCNMVSPFQ WDWENLIMSN PSRTENDNKQ LSTEWETEKG DGIESIVPDF LGFERVSSGS  60
ATSFWHTAVS KSSQSTSTNS SSPNVKRCKL ASESSPADSC NNIDFVHVKA TTALHASLAS  120
AESDLCLKLG KQAYSEEFWG RNNNEISAVS MKLLTPSVVA RKKSKSCGQS MQVPRCQIDG  180
CDLDLSSAKD YHRKHKVCEK HSKCPRVTVS GLERRFCQQC SRFHAVSEFD EKKRSCRKRL  240
SHHNARRRKP QGLFSMNPER VYDRRQHSNM LWNGLSLNTS SEEKYEWETT YDTKPRQTES  300
GFTLSFQRGN GSEEQLVGSS SRSFSTFQTS GGFSVGKSKF QLQGQGVGEY SGVLHESQDF  360
HRALSLLSTS SDPLAQLHAH PLPLPFSYDV VPNR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00161DAPTransfer from AT1G27360Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.8874s0007.1.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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ0116350.0AJ011635.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 11.
GenBankAY0701060.0AY070106.1 Arabidopsis thaliana putative squamosa-promoter binding protein 2 (At1g27360) mRNA, complete cds.
GenBankAY0881850.0AY088185.1 Arabidopsis thaliana clone 42666 mRNA, complete sequence.
GenBankAY0912860.0AY091286.1 Arabidopsis thaliana putative squamosa-promoter binding protein 2 (At1g27360) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006305003.10.0squamosa promoter-binding-like protein 11
RefseqXP_023633113.10.0squamosa promoter-binding-like protein 11
RefseqXP_023633114.10.0squamosa promoter-binding-like protein 11
SwissprotQ9FZK00.0SPL11_ARATH; Squamosa promoter-binding-like protein 11
TrEMBLR0GPQ00.0R0GPQ0_9BRAS; Uncharacterized protein
STRINGCagra.8874s0007.1.p0.0(Capsella grandiflora)
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]