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 GSBRNA2T00078397001
Common NameGSBRNA2T00078397001
Organism
Brassica napus
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: 798aa    MW: 89137.4 Da    PI: 6.5984
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00078397001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP116.21.8e-36140216177
                          --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 l +fDe+krsCrr+L++hn+rr++k 
  GSBRNA2T00078397001 140 RCQVPGCEVDISELKGYHRRHRVCLRCANASFVVIDGEDKRYCQQCGKFHVLPDFDEGKRSCRRKLERHNNRRKRKP 216
                          6************************************************************************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.5E-28134202IPR004333Transcription factor, SBP-box
PROSITE profilePS5114129.692138215IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.83E-34139219IPR004333Transcription factor, SBP-box
PfamPF031102.0E-27141214IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 798 aa     Download sequence    Send to blast
MSSLSQSQSQ SPSPPEMEIQ PPALLDDDPS TYSSSALWDW GDLLDFAADE RLLVSLDSDQ  60
TPFSPVPPPP MIPTQSETYP SPDESGGSGS DRVRKRDPRL LCSNFVEGLL PCSCPELDQK  120
LEEAELPKKK RVRGGSGVAR CQVPGCEVDI SELKGYHRRH RVCLRCANAS FVVIDGEDKR  180
YCQQCGKFHV LPDFDEGKRS CRRKLERHNN RRKRKPVDKG GVASKQQQVL PQNDNSVIDV  240
DDGKADNTCS SDQRVEQETS LNFEDRHIPT QGSVPFTHSI NADNFVSGTC SGEAQPDEGI  300
NDTKFELSPS GGDNKSAYST MCPTGRISFK LYDWNPAEFP RRLRHQIFQW LATMPVELEG  360
YIRPGCTILT VFIAMPEIMW AKLSKDPVSY LDEFILKPGK MLFGRGSMTV YLNNMIFRGT  420
TLRRVDVKLE SPNLQFVYPT CFEAGKPIEL VVCGLNLVQP KCRFLVSFSG KYLPHNYSAV  480
PGPGQDGKRS CNNKLYRINI VNSDLNLFGP AFVEVENESG LSNFIPLIIG DKAICSEMKL  540
IEQEFNATLF PEEQGITTCC SLTCCCKDFK ERQSTFTGLL LDIAWSVKVP SSECTEQTVN  600
RCQIKRYNRV LNYLIQSNSP SILGNVLHNL ETLVKKMEPD SFVHCTCDCD VRLLHENMNT  660
ARKQQSHVDS KMNPVTSVCC CESSFQKDIP SRVPNFNQEP EAGVGCDERI QAASPDTGRK  720
ETDPLLNKEV VMTVNDIGDW PRKSCIPIQS AQTFRSRQTV LFIATIAVCF AVCAVLYHPN  780
KVTQLAVSIR TRLAHKL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul5_A1e-49138223388squamosa promoter binding protein-like 7
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.239071e-144stem| vegetative meristem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed constitutively during plant development. {ECO:0000269|PubMed:10524240}.
UniprotTISSUE SPECIFICITY: Expressed in roots rosette leaves, cauline leaves, stems, flowers and siliques. {ECO:0000269|PubMed:24335506}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00078397001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3535520.0AK353552.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-52-E05.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013612712.10.0PREDICTED: squamosa promoter-binding-like protein 7 isoform X1
SwissprotQ8S9G80.0SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBLA0A078FNK30.0A0A078FNK3_BRANA; BnaC09g39030D protein
STRINGBo9g154530.10.0(Brassica oleracea)
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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. Araki R, et al.
    SPL7 locally regulates copper-homeostasis-related genes in Arabidopsis.
    J. Plant Physiol., 2018.
    [PMID:29635212]