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 Neem_11528_f_1
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family SBP
Protein Properties Length: 772aa    MW: 86294.2 Da    PI: 8.104
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_11528_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP116.11.9e-3673150178
                     --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
             SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                     +Cqv gCead+se+k yh+rh+vC  +++a++vl++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k+ 
  Neem_11528_f_1  73 RCQVSGCEADISELKGYHKRHRVCLRCANASAVLLDGESKRYCQQCGKFHILSDFDEGKRSCRRKLERHNNRRRRKSV 150
                     6*************************************************************************9875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.1E-2770135IPR004333Transcription factor, SBP-box
PROSITE profilePS5114129.62471148IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.1E-3372151IPR004333Transcription factor, SBP-box
PfamPF031102.5E-2774148IPR004333Transcription 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: 772 aa     Download sequence    Send to blast
MNPNKHRKAT NRCHDFPTLA KISIIIGLTC SNFLAGRIPC ACPEIDEKLE EEEAGLPGKK  60
RARTVRAGVG QARCQVSGCE ADISELKGYH KRHRVCLRCA NASAVLLDGE SKRYCQQCGK  120
FHILSDFDEG KRSCRRKLER HNNRRRRKSV DSKGAVDNEP PGASHSEDIV CDDDAGKDSL  180
CLSSQITDQE TFLEAEDGHV TGLNSAPNAQ NVNSDSGISF AASGEIRIDG GKDNSKTSPS  240
PSYCDNKSSY SSMCPTGRIS FKLYDWNPAE FPRRLRHQIF QWLASMPVEL EGYIRPGCTI  300
LTIFVAMPKI MWMKLYADPI RYVHDFVIAP GRMLSGRGPM FVHLNNMIFH VKDGTSVMKV  360
NVEVQAPRLH YVHPTCFEAG KPMEFVACGS NLLQSKFRFL ISFAGKYLPY VYRIASPHGE  420
TDGDPLTFDH QLYKIRVPHT EPNLFGPAFI EVENESGLSN FIPVLIGDKE TCSEMKIIQQ  480
RFEASLITKR SQLMAGDSLS NLCGISALRQ KTFTELLVDI AWLLKVPASE SFLYFMSSSR  540
VQRFNCLFSF LINNESTVIL EKLLQNLKIL MDSMEFNSAI NGINDADLGL LFKYMDNARE  600
ILQRKLQKDG GLMQHAVNIV QERICGSQSS FQSNLLVPST SQVRASILSY RGSNKMILDH  660
DLDTRSNTKL GVMVYSAAVD RCETTPLLNK EVIMNVNLIK EWPRKSCGHI LSGTVLSSRP  720
AIFVIVMAAV CFGVCVVVLH PQKIKYEAEV TWCTCKVVVH LDPDGRATWD IA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul5_A3e-4272154486squamosa promoter binding protein-like 7
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1134146RRKLERHNNRRRR
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006419724.10.0squamosa promoter-binding-like protein 7 isoform X1
SwissprotQ8S9G80.0SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBLV4U1340.0V4U134_9ROSI; Uncharacterized protein
STRINGXP_006419724.10.0(Citrus clementina)
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]