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 678374130
Organism
Utricularia gibba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lentibulariaceae; Utricularia
Family C2H2
Protein Properties Length: 443aa    MW: 48651.1 Da    PI: 9.0133
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
678374130genomeUGSPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.13.5e-066486123
               EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
               + C++C+k F+r  nL+ H r H
  678374130 64 FICEICNKGFRRDQNLQLHRRGH 86
               89*******************88 PP
2zf-C2H212.10.00061141163123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+k +  +s+ k H + +
  678374130 141 WKCEKCSKKYAVQSDWKAHSKIC 163
                58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.18E-76386No hitNo description
Gene3DG3DSA:3.30.160.601.9E-56386IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121716.2E-56486IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0126486IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9286486IPR007087Zinc finger, C2H2
PROSITE patternPS0002806686IPR007087Zinc finger, C2H2
SMARTSM00355110106136IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.4E-4129162IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.18E-7136161No hitNo description
SMARTSM00355140141161IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010075Biological Processregulation of meristem growth
GO:0045604Biological Processregulation of epidermal cell differentiation
GO:0048364Biological Processroot development
GO:0051302Biological Processregulation of cell division
GO:0003676Molecular Functionnucleic acid binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 443 aa     Download sequence    Send to blast
MMSTRGDAFP AHLLHSTAAA AAARPQDAAP NPSSKRKRSL PGTPDPEAEV VALSPPSLMA  60
TNRFICEICN KGFRRDQNLQ LHRRGHNLPW KLKQRSSKEQ IRKKVYICPE KTCVHHDPAR  120
ALGDLTGIKK HFSRKHGEKK WKCEKCSKKY AVQSDWKAHS KICGTREYKC DCGTLFSRKD  180
SFITHRAFCD ALAEEGARFP PPAAAGNLRF KTDFLNASGN NGSQFPGQEI ESGKPRFPIW  240
LDSCSGLKFY SQGPDLVQLA AAVSQNQWME AAEYGGVVNM NMNMHMGHHP SSNIGPRMLK  300
EEEDNNTTTK DASFSETLSS MLYTNHHGEP NTPALPMSAT ALLQKAAQMG SSTRSTNSLL  360
LGSTFSSNAA AMNMMAVPSP PSDSSTLLLR ESVLGENMGL TRDFLGVGGN NQMLNGQFLP  420
ENELAEFAAA NSLEMAHFRS LNH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-37137198364Zinc finger protein JACKDAW
5b3h_F3e-37137198364Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
190103KLKQRSSKEQIRKK
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00485DAPTransfer from AT5G03150Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap678374130
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}.
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_011089318.11e-153protein indeterminate-domain 9
SwissprotQ700D21e-116IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A4D9ARF51e-151A0A4D9ARF5_SALSN; Uncharacterized protein
STRINGXP_009620251.11e-141(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.11e-103C2H2-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]