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 Han003259
Organism
Helianthus annuus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Asteroideae; Heliantheae alliance; Heliantheae; Helianthus
Family C2H2
Protein Properties Length: 210aa    MW: 23903.6 Da    PI: 10.0552
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Han#S32079352PU_refUnigeneView CDS
PUT-169a-Helianthus_annuus-34647PU_unrefplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.74.6e-066284123
               EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
               ++C++C+k F r  nL+ H r H
  Han003259 62 FVCEICNKGFQRDQNLQLHRRGH 84
               89*******************88 PP
2zf-C2H211.90.00068139159121
                EEETTTTEEESSHHHHHHHHH CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHir 21 
                +kC++C+k +  +s+ k H  
  Han003259 139 WKCEKCSKKYAVQSDWKAHSX 159
                58*****************65 PP
3zf-C2H2120.00066169187523
                TTTEEESSHHHHHHHHHHT CS
    zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                dCg+ Fsrk+++ +H   +
  Han003259 169 DCGTIFSRKDSFITHRAFC 187
                9**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.3E-66184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.52E-76184No hitNo description
PROSITE profilePS5015710.9496284IPR007087Zinc finger, C2H2
SMARTSM003550.0176284IPR015880Zinc finger, C2H2-like
PfamPF121712.6E-56284IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
SMARTSM00355120104134IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.3E-5126158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.52E-7134158No hitNo description
SMARTSM00355230139159IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 210 aa     Download sequence    Send to blast
MSGEDLSSSP SSLSAFIQDP ISNPNPNSTN SSKRKRNLRG SPDPDAEVVA LSPRSLMAKN  60
RFVCEICNKG FQRDQNLQLH RRGHNLPWKL KQRNKLEVVK KKVYICPEIS CVHHDPSRAL  120
GDLTGVKKHY FRKHGEKKWK CEKCSKKYAV QSDWKAHSXI CGTREYKCDC GTIFSRKDSF  180
ITHRAFCDAL NEEXSRMASL SMMSNASNLX
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-38135201369Zinc finger protein JACKDAW
5b3h_F1e-38135201369Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Start to accumulate during the 16- to 32-cell stage of embryogenesis. {ECO:0000269|PubMed:17785527}.
UniprotTISSUE SPECIFICITY: Expressed in the quiescent center, the ground tissue stem cells and to a lesser extent in mature cortex and endodermis cells. {ECO:0000269|PubMed:17785527}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that, together with BIB, regulates tissue boundaries and asymmetric cell division by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:17785527, PubMed:25829440). Binds DNA via its zinc fingers (PubMed:28211915, PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Required for radial patterning and stem cell maintenance (PubMed:17785527). Counteracted by 'MAGPIE' (MGP) (PubMed:17785527). Binds to the SCR and MGP promoter sequences (PubMed:21935722). Controls position-dependent signals that regulate epidermal-cell-type patterning (PubMed:20356954). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:20356954, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:28211915}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022001112.11e-152protein indeterminate-domain 9-like
SwissprotQ700D21e-108IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A251SVL91e-151A0A251SVL9_HELAN; Putative zinc finger C2H2-type/integrase DNA-binding domain-containing protein
STRINGXP_010032012.11e-117(Eucalyptus grandis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.13e-90C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  2. Hirano Y, et al.
    Structure of the SHR-SCR heterodimer bound to the BIRD/IDD transcriptional factor JKD.
    Nat Plants, 2017. 3: p. 17010
    [PMID:28211915]
  3. Kobayashi A,Miura S,Kozaki A
    INDETERMINATE DOMAIN PROTEIN binding sequences in the 5'-untranslated region and promoter of the SCARECROW gene play crucial and distinct roles in regulating SCARECROW expression in roots and leaves.
    Plant Mol. Biol., 2017. 94(1-2): p. 1-13
    [PMID:28324206]
  4. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]
  5. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]