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 XP_010558265.1
Organism
Tarenaya hassleriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya
Family C2H2
Protein Properties Length: 522aa    MW: 57798.5 Da    PI: 10.0375
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010558265.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.11.5e-0580102123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     ++C++C+k F r  nL+ H r H
  XP_010558265.1  80 FVCEICNKGFQRDQNLQLHRRGH 102
                     89*******************88 PP
2zf-C2H213.90.00016157179123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC++C+k +  +s+ k H +t+
  XP_010558265.1 157 WKCEKCSKKYAVQSDWKAHTKTC 179
                     58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.07E-779102No hitNo description
Gene3DG3DSA:3.30.160.601.7E-579102IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121718.4E-580102IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.94980102IPR007087Zinc finger, C2H2
SMARTSM003550.01780102IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028082102IPR007087Zinc finger, C2H2
SMARTSM0035567122152IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.7E-5145178IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.07E-7152177No hitNo description
SMARTSM00355130157177IPR015880Zinc 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: 522 aa     Download sequence    Send to blast
MQMVPGDPFS LSSFAHQEPQ LHRLQQNHDL NPSPNPNSNP NQSAKPNPSS KRKRSQPGTP  60
DPDAEVMALS PKTLMATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ RTNKEAVKKK  120
VYVCPIKTCV HHEPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKKYAVQS DWKAHTKTCG  180
TREYKCDCGT LFSRKDSFIT HRAFCDALTD ETARITSLGN DNSVSANNLN FGNDNSDNNL  240
NQLPHGFVNR DTVHHPDIDS AINHHHHQFG LGFGQDLCGM HTQGLSEMVQ MTSTGGNHHL  300
FPSSTSSLPD FAGQSHHHHF QIPATPLNPN LKSSSPMASA SLPSLQQHQT LKDTSLSPLF  360
SSSDTQHQNN NKPISPMPAT ALLQKAAQMG STRSTASAAP SFFAGSMMSS SAASPSSSPS  420
PRNPIMIHHQ MFNPNPRSIN HQENHNLSNP SPPQKNSATS SSTAAPKMAN PNPNPGQNSI  480
QQMGMTRDFL GVRSEHHHHH QQQQQMGRPF LPQELARFAP FG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-39153222372Zinc finger protein JACKDAW
5b3h_F1e-39153222372Zinc 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
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_010558265.1
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_010558265.10.0PREDICTED: zinc finger protein JACKDAW-like isoform X1
SwissprotQ700D20.0IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A087G4G30.0A0A087G4G3_ARAAL; Uncharacterized protein
STRINGXP_010558265.10.0(Tarenaya hassleriana)
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-169C2H2-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]