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_010543387.1
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: 518aa    MW: 56863.7 Da    PI: 10.0283
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010543387.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.5e-0586108123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     ++C++C+k F r  nL+ H r H
  XP_010543387.1  86 FVCEICNKGFQRDQNLQLHRRGH 108
                     89*******************88 PP
2zf-C2H213.90.00016163185123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC++C+k +  +s+ k H +t+
  XP_010543387.1 163 WKCEKCSKKYAVQSDWKAHTKTC 185
                     58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.7E-585108IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.89E-785108No hitNo description
SMARTSM003550.01786108IPR015880Zinc finger, C2H2-like
PfamPF121718.3E-586108IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.94986108IPR007087Zinc finger, C2H2
PROSITE patternPS00028088108IPR007087Zinc finger, C2H2
SMARTSM0035568128158IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.6E-5151184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.89E-7158183No hitNo description
SMARTSM00355130163183IPR015880Zinc 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: 518 aa     Download sequence    Send to blast
MQMIPGDPFS LSSSMAGFAH HQEPQLHHLQ QQNPDLNPNP NPNLNPNPNA KPNPSSKKKR  60
NQPGTPDPDA EVIALSPKTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTNK  120
EAVRKKVYIC PIKTCVHHDP SRALGDLTGI KKHYSRKHGE KKWKCEKCSK KYAVQSDWKA  180
HTKTCGTREY KCDCGTLFSR KDSFITHRAF CDALTEESAR MSSLGNNNSG STNLNFGNDS  240
NNNNNNMNSV PHGFINRSVH HPDISSAINH QFGLGFGHDL TGMHAHGLSE MVQMSSAGNH  300
HLFPPPPSSS SSIPEFAGHH HHFQIPATST NPNLTLSSSS SASLPVLQNQ QTLKDASPSP  360
LFSSSDKQQP NKPISPMSAT ALLQKAAQMG STRSTATAAP SFFAGSMTSS SAASPSSSSP  420
PPPPRNPIMI HHQMFNPNPR SINHQEHHNL APPPPPPNMS TATSYAAAAA PNPNPGYYPI  480
QQMGMTRDFL GVSSEHHLHH QMGRQFLPQE LTRFAPLG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-43159228372Zinc finger protein JACKDAW
5b3h_F4e-43159228372Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1112125KLRQRTNKEAVRKK
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_010543387.1
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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010543387.10.0PREDICTED: zinc finger protein JACKDAW-like isoform X1
SwissprotQ700D20.0IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A3P6D0B70.0A0A3P6D0B7_BRAOL; Uncharacterized protein
STRINGXP_010543387.10.0(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-171C2H2-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]