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 Bostr.26527s0326.1.p
Organism
Boechera stricta
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Boechereae; Boechera
Family SBP
Protein Properties Length: 814aa    MW: 90711.2 Da    PI: 6.6834
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bostr.26527s0326.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP116.11.9e-36144220177
                           --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                   SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                           +Cqv+gCe+d+se+k yhrrh+vC  +++a+ v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rr++k 
  Bostr.26527s0326.1.p 144 RCQVPGCEVDISELKGYHRRHRVCLRCANASFVVLDGENKRYCQQCGKFHVLSDFDEGKRSCRRKLERHNNRRKRKP 220
                           6************************************************************************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.3E-28138206IPR004333Transcription factor, SBP-box
PROSITE profilePS5114129.658142219IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.49E-34143223IPR004333Transcription factor, SBP-box
PfamPF031101.7E-27145218IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0055070Biological Processcopper ion homeostasis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 814 aa     Download sequence    Send to blast
MSSLSQSPTP PEMEIQPPAL VNDDPSTYSS ALWDWGDLLD FAADERLLVS FDSDQQTPFS  60
PVPPPPPPPP QLIPTQPLAE SESYPSPEES GSGSDRVRKR DLRLICSNFI EGMLPCSCPE  120
LDQKLEEAEL PKKKRVRGGS GVARCQVPGC EVDISELKGY HRRHRVCLRC ANASFVVLDG  180
ENKRYCQQCG KFHVLSDFDE GKRSCRRKLE RHNNRRKRKP VDKGGVAAKQ QQVLSQNDNS  240
VIDVEDGKDN TCSSDQRAEQ EASLIFEDRH IPAQGSVPFT HSINADNFVS VTGSGEPQPD  300
EGMNDTKFEL SPSGGDNKSA YSTVCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLSTMPVE  360
LEGYIRPGCT ILTVFIAMPE IMWAKLSKDP VAYLDEFILK PGKMLFGRGS MTVYLNNMIF  420
RLIKGGTTLK RVDVKLESPK LQFVYPTCFE AGKPIELVVC GQNLLQPKCR FLVSFSGKYL  480
PHNYSAVPTP AQDGKSSCNN KFYKINIVNS DPNLFGPAFV EVENESGLSN FIPLIIGDES  540
ICSEMKQIEQ KFNATLVPEG QGVTACCSST CCCRDFGERQ STFSGLLLDI AWSVKVPSAE  600
CTEQTINRCQ IKRYNRVLNY LIQNNSSSIL GNVLHNLETL VKKMEPDSLV HCTCDCDVRL  660
LHENMNLASD ANRKHQSHEE SKVNPGNVLP SSGCCCESSF QKDKPSRILN FNQDPEAGLD  720
CKERIQADFS PDIGGKETDP LLNKEIVMNV NDIGDWPRKS CIPIHSTLTF RSRQTVFLIA  780
TFAVCFAVCA VLYHPNKVTQ LAVAIRTRLA HKL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul5_A2e-49142227388squamosa promoter binding protein-like 7
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that participates in reprogramming global gene expression during copper deficiency in order to improve the metal uptake and prioritize its distribution to copper proteins of major importance (Probable). Binds directly to 5'-GTAC-3' motifs in the microRNA (miRNA) promoter of the stress-responsive miRNAs miR398b and miR398c to activate their transcription. During copper deficiency, activates the copper transporters COPT1 and COPT2, and the copper chaperone CCH, directly or indirectly via miRNAs. Required for the expression of the miRNAs miR397, miR408 and miR857 (PubMed:19122104). Acts coordinately with HY5 to regulate miR408 and its target genes in response to changes in light and copper conditions (PubMed:25516599). Activates miR857 and its target genes in response to low copper conditions (PubMed:26511915). Involved in cadmium stress response by regulating miR397a, miR398b, miR398c and miR857 (PubMed:27352843). Required for iron homeostasis during copper deficiency (PubMed:22374396). {ECO:0000269|PubMed:19122104, ECO:0000269|PubMed:22374396, ECO:0000269|PubMed:25516599, ECO:0000269|PubMed:26511915, ECO:0000269|PubMed:27352843}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00604PBMTransfer from AT5G18830Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBostr.26527s0326.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3673550.0AF367355.1 Arabidopsis thaliana AT5g18830/F17K4_80 mRNA, complete cds.
GenBankAJ0116120.0AJ011612.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 7.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010454135.10.0PREDICTED: squamosa promoter-binding-like protein 7 isoform X2
SwissprotQ8S9G80.0SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBLR0FIT60.0R0FIT6_9BRAS; Uncharacterized protein
STRINGBostr.26527s0326.1.p0.0(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM63582644
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18830.10.0squamosa promoter binding protein-like 7
Publications ? help Back to Top
  1. Zhang H, et al.
    MicroRNA408 is critical for the HY5-SPL7 gene network that mediates the coordinated response to light and copper.
    Plant Cell, 2014. 26(12): p. 4933-53
    [PMID:25516599]
  2. Zhao Y, et al.
    MicroRNA857 Is Involved in the Regulation of Secondary Growth of Vascular Tissues in Arabidopsis.
    Plant Physiol., 2015. 169(4): p. 2539-52
    [PMID:26511915]
  3. Perea-García A, et al.
    Modulation of copper deficiency responses by diurnal and circadian rhythms in Arabidopsis thaliana.
    J. Exp. Bot., 2016. 67(1): p. 391-403
    [PMID:26516126]
  4. Gielen H,Remans T,Vangronsveld J,Cuypers A
    Toxicity responses of Cu and Cd: the involvement of miRNAs and the transcription factor SPL7.
    BMC Plant Biol., 2016. 16(1): p. 145
    [PMID:27352843]
  5. Yan J, et al.
    Arabidopsis Pollen Fertility Requires the Transcription Factors CITF1 and SPL7 That Regulate Copper Delivery to Anthers and Jasmonic Acid Synthesis.
    Plant Cell, 2017. 29(12): p. 3012-3029
    [PMID:29114014]
  6. Araki R, et al.
    SPL7 locally regulates copper-homeostasis-related genes in Arabidopsis.
    J. Plant Physiol., 2018.
    [PMID:29635212]