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 Neem_6347_f_3
Organism
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 C2H2
Protein Properties Length: 467aa    MW: 50791.4 Da    PI: 9.2247
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_6347_f_3genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.74.2e-056484323
                   ETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                   C++Cgk F r  nL+ H r H
  Neem_6347_f_3 64 CEICGKGFQRDQNLQLHRRGH 84
                   *******************88 PP

2zf-C2H213.50.00021138160123
                    EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                    +kC++C+k++  +s+ k H +t+
  Neem_6347_f_3 138 WKCEKCSKRYAVQSDWKAHSKTC 160
                    58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.0E-56184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.97E-66184No hitNo description
PROSITE profilePS5015711.4896284IPR007087Zinc finger, C2H2
SMARTSM003550.0766284IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-4126159IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.97E-6133158No hitNo description
SMARTSM00355130138158IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 467 aa     Download sequence    Send to blast
MAEETIPNGF VQNSAAGSNP PAVKKKRNLP GTPGKQLLYS IIDPEAEVIA LSPKTLMATN  60
RFLCEICGKG FQRDQNLQLH RRGHNLPWKL KQRASKEVRK RVYVCPEKTC VHHHPSRALG  120
DLTGIKKHFC RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYKCDCG TIFSRRDSFI  180
THRAFCDALA EETARVNAAS SMNSLANGTI NYHLMGTPLG PSVAQHFSSI FKPISSSAET  240
IDQTRRGLSI WMAPASQGHE NIVNNLQEIH QVGSMHSGTA VFGDPLASCS NPPPSDDHLN  300
WVFGNKLSSN NAHEALASTS LPLTDVKEAA THQLVSVPSL YSSQQHTHQA ASADMSATAL  360
LQKAAQIGAT STHPSFLGSF GLKCSSNQVQ DGNKFCGLYG STAIANNLGT DVEKSGSDIS  420
TLSQPQMPPA KRRHLLSEES TGGQTRDFLG VGVQAISCHP SSIRGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-36134203372Zinc finger protein JACKDAW
5b3h_F2e-36134203372Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007043706.20.0PREDICTED: zinc finger protein MAGPIE isoform X2
SwissprotQ9ZWA61e-150IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A061E4I00.0A0A061E4I0_THECC; C2H2 and C2HC zinc fingers superfamily protein
STRINGEOX995370.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37102660
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-153C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]