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 EcC045643.60
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Myrtales; Myrtaceae; Myrtoideae; Eucalypteae; Eucalyptus
Family C2H2
Protein Properties Length: 491aa    MW: 53688.5 Da    PI: 9.7274
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
EcC045643.60genomeECGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.4e-055678123
                  EEETTTTEEESSHHHHHHHHHHT CS
       zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                  ++C++C+k F r  nL+ H r H
  EcC045643.60 56 FVCEICNKGFQRDQNLQLHRRGH 78
                  89*******************88 PP

2zf-C2H212.80.00036132154123
                   EEETTTTEEESSHHHHHHHHHHT CS
       zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                   +kC++C+k +  +s+ k H +t+
  EcC045643.60 132 WKCEKCSKKYAVQSDWKAHSKTC 154
                   58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576675.41E-75578No hitNo description
Gene3DG3DSA:3.30.160.601.6E-55578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121717.8E-55678IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.9495678IPR007087Zinc finger, C2H2
SMARTSM003550.0175678IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805878IPR007087Zinc finger, C2H2
SMARTSM0035510097127IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-4120153IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.41E-7127152No hitNo description
SMARTSM00355140132152IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010075Biological Processregulation of meristem growth
GO:0042545Biological Processcell wall modification
GO:0045604Biological Processregulation of epidermal cell differentiation
GO:0048364Biological Processroot development
GO:0051302Biological Processregulation of cell division
GO:0005618Cellular Componentcell wall
GO:0003676Molecular Functionnucleic acid binding
GO:0030599Molecular Functionpectinesterase activity
GO:0042803Molecular Functionprotein homodimerization activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 491 aa     Download sequence    Send to blast
MKLTTQTLTL IKLPPTLEPR RREICREHQM CDTDTTDPDA EVIALSPKTL MATNRFVCEI  60
CNKGFQRDQN LQLHRRGHNL PWKLRQRSKE VVKKKVYICP EKTCVHHDPS RALGDLTGIK  120
KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKTCGTREYK CDCGTLFSRK DSFITHRAFC  180
DALAEESARF SSVSSTNLNF ANNAMNETTI GAHSNLPPHG FSNNRGVQDI TGVSLTTLQQ  240
KSRMSQWINP ANPALNPSDI LSSNPNLTCL SEMVQMGNAS GNNLFGSSPM SNFGSNKQFS  300
AFEKTNLTLS AFRQGLKDQA GSNKGNLFEA PPSLYSDSQT KPSAALMSAT ALLQKAAQMG  360
SSRSNPGSLF KESFGVMSSS SSSNTTAFSV LGQSQNDLPS QFINQSMMSK QQESFGAPVG  420
GMNNLSDSVP NLSPSMTRPT TTTTNSLELN ATRDFLGMSG GAGGPPFSPQ EFAKFASMSS  480
AMGFSQFVGN N
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-39128197372Zinc finger protein JACKDAW
5b3h_F2e-39128197372Zinc finger protein JACKDAW
Search in ModeBase
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
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_010046700.10.0PREDICTED: zinc finger protein JACKDAW
SwissprotQ700D21e-121IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A059DEI70.0A0A059DEI7_EUCGR; Uncharacterized protein
STRINGXP_010046700.10.0(Eucalyptus grandis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-109C2H2-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-AvendaƱo 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]