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 Gorai.005G056500.1
Common NameB456_005G056500, LOC105796802
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family SBP
Protein Properties Length: 805aa    MW: 89841 Da    PI: 6.4108
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.005G056500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP118.24e-37141216176
                         --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS
                 SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 
                         +Cqv+gCe+d++e+k yhrrh+vC +++++++vl++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k
  Gorai.005G056500.1 141 RCQVPGCEVDITELKGYHRRHRVCLQCANSSTVLINGESKRYCQQCGKFHLLSDFDEGKRSCRRKLERHNNRRRRK 216
                         6************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.108.5E-29136203IPR004333Transcription factor, SBP-box
PROSITE profilePS5114129.701139216IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.57E-33141219IPR004333Transcription factor, SBP-box
PfamPF031103.1E-27142216IPR004333Transcription 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:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 805 aa     Download sequence    Send to blast
MEQPASSPNT TPRGSPRSKD PQMDVHLPVT EPDPSSSSVW DWGDLLDFTL DDHFSISLDD  60
GNMYTPPFEA SPSVPDPEPV SGPDRVRKRD PRMTCSNFLT GRVPCACPEI DEQMEKLEEE  120
EAGAPGKKRA RTGRVGSGTS RCQVPGCEVD ITELKGYHRR HRVCLQCANS STVLINGESK  180
RYCQQCGKFH LLSDFDEGKR SCRRKLERHN NRRRRKPVGS KTEVNKESLG AVQSEDIACD  240
GEAGKDDLSL SGQTAEDPPF ESEDGLVSAD CSAPMLQTVN NDSTVALIDT GTDGGKEDLK  300
FSISTSYHDN RTAYSSMCPT GRISFKLYDW NPAEFPRRLR HQIFQWLADM PVELEGYIRP  360
GCTILTVFIS MPKNMWMKLS ENPMTYMHDF VFTPGRMLHG RGLMTIHLNN MIFRASKGGS  420
SLVKLDMGVQ APRLHYVHPS CFEAGKPMEF VACGSNLLQP KLQFLVSFAG RYLPYDYCLA  480
SAHVNATEGS SSCDHLLYKI YVPQTESDLF GPVFIEVENQ SGLSNFIPVL IGDKDVCSEM  540
KVIQQGFDAS LFWGGSQISA NRSSCETSTW RQKAYSELVL DIAWLLREPK SENFQETMAS  600
SQIQRFNCLL NFLIQNKSTV ILKKVLQNLK NVVEEAGFNG TDDPDTRLLK KYMDYGRDIL  660
NNKLQEGERP VLLSEYIEQE GKWNSQSSLK NDGLFVPNGS QDLGERTNAK FQTMMASTTL  720
TRSETVPLLN KEIVMNVNLS KELPRKSCST IFATTTLRSC PALFVVATAA ICLGICAVFL  780
HPNKVGEFAV TIRRCLSKRS YIIE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul5_A1e-42140218482squamosa promoter binding protein-like 7
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1202214RRKLERHNNRRRR
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00604PBMTransfer from AT5G18830Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012482069.10.0PREDICTED: squamosa promoter-binding-like protein 7 isoform X1
SwissprotQ8S9G80.0SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBLA0A0D2PN630.0A0A0D2PN63_GOSRA; Uncharacterized protein
STRINGGorai.005G056500.10.0(Gossypium raimondii)
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
AT5G18830.20.0squamosa promoter binding protein-like 7
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  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]