PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID CA01g24950
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Capsiceae; Capsicum
Family SBP
Protein Properties Length: 798aa    MW: 89211.5 Da    PI: 6.893
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
CA01g24950genomePEPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP1154.1e-36145222178
                 --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
         SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                 +Cqv++Cead+se+k yh+rh+vC  +++a++v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k++
  CA01g24950 145 RCQVPDCEADISELKGYHKRHRVCLRCANASAVFLDGHNKRYCQQCGKFHILSDFDEGKRSCRRKLERHNNRRRRKAT 222
                 6*************************************************************************9875 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.107.2E-27142207IPR004333Transcription factor, SBP-box
PROSITE profilePS5114129.351143220IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.22E-33144224IPR004333Transcription factor, SBP-box
PfamPF031101.8E-26146220IPR004333Transcription 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: 798 aa     Download sequence    Send to blast
MDNQAFSPSQ TGAATRLANT HMTFSGVHDD PATSSLFDWA DLLEFNLDEQ LTISFDDPLR  60
PPPETQPMMG PVIPSSEDSP QSQDTEAGRI RKRDPRMVCS NFLAGRIPCA CPELDEKMEE  120
EELAGIGPGK KRARTVRASA GAGARCQVPD CEADISELKG YHKRHRVCLR CANASAVFLD  180
GHNKRYCQQC GKFHILSDFD EGKRSCRRKL ERHNNRRRRK ATDSSKTSAE KESQQVTMAD  240
DGSGDDDIVK DSTCMGSQLG EKEILLESEG HVPIDSTQGI QNNHSDSFTA SGETQADAEK  300
ENFKSSHSPS YYDSKSGFSS ACPTGRISFK LYDWNPAEFP RRLRHQIFQW LASMPVELEG  360
YIRPGCTILT VFVAMPTFKW GKLLKDPAAH LYELIASPGN MLRGRGSFLV YLNDMVFRVT  420
KAGGDSIVKV KLKGPAPKLK SIHPMCFEAG KPMEFIACGN NLMQPRFRFL VSFGGTYLGN  480
DTNVVPSGCK SDGDSSSMDH QLLKIHVPRT EAGLFGPAFV EVENESGLSN FIPILIAEKD  540
ICAEMKEIQR KFCSGVSERT AVCSPCEAST SRKSEFSEFM LDVAWLLREP SAENVQILAS  600
VQMQRFNYLL NILMESQSTI ILERVLSYFE NMVKRNMLAG ITDADMRLFQ RNIREKNNLL  660
KERLHRKENF AGDSRQIMQE ANTSSQIFQN HMLSVFPVIN QDTEVVPDKH NIEFDSTYWE  720
GTSTVPLLDA ELALRVKEEQ SVKSCGFLVR KTVVTSRTLV FLITGFAVCL GLCATFLHPR  780
KVGEFAMTIR RCLFDRN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul5_A8e-46141223183squamosa promoter binding protein-like 7
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1206218RRKLERHNNRRRR
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
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLC0732960.0LC073296.1 Nicotiana tabacum NtabSPL7 mRNA for squamosa promoter binding protein NtabSPL7, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016541341.10.0PREDICTED: squamosa promoter-binding-like protein 7 isoform X1
SwissprotQ8S9G80.0SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBLA0A1U8E4J10.0A0A1U8E4J1_CAPAN; squamosa promoter-binding-like protein 7 isoform X1
STRINGPGSC0003DMT4000160720.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA54072433
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-GarcĂ­a 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]