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 KFK24765.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family C2H2
Protein Properties Length: 517aa    MW: 56657.4 Da    PI: 10.1298
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK24765.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.5e-0579101123
                 EEETTTTEEESSHHHHHHHHHHT CS
     zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                 ++C++C+k F r  nL+ H r H
  KFK24765.1  79 FVCEICNKGFQRDQNLQLHRRGH 101
                 89*******************88 PP
2zf-C2H2140.00015156178123
                 EEETTTTEEESSHHHHHHHHHHT CS
     zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                 +kC++C+k +  +s+ k H +t+
  KFK24765.1 156 WKCEKCSKKYAVQSDWKAHAKTC 178
                 58******************998 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-578101IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.89E-778101No hitNo description
SMARTSM003550.01779101IPR015880Zinc finger, C2H2-like
PfamPF121718.3E-579101IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.94979101IPR007087Zinc finger, C2H2
PROSITE patternPS00028081101IPR007087Zinc finger, C2H2
SMARTSM0035583121151IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.8E-5144177IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.89E-7151176No hitNo description
SMARTSM00355140156176IPR015880Zinc 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: 517 aa     Download sequence    Send to blast
MQMIPGDPFS ISSSMGGFVH QEQHLHHLQQ QIPDLNPTSN PNPNAKPSTK KKRNQPGTPD  60
PDADVIALSP TTLMATNRFV CEICNKGFQR DQNLQLHRRG HNLPWKLKQR SNKEVIKKKV  120
YICPIKTCVH HEASRALGDL TGIKKHYSRK HGEKKWKCEK CSKKYAVQSD WKAHAKTCGT  180
REYKCDCGTL FSRKDSFITH RAFCDALTEE GARMSSLSSN IPVPISTTNL NFGNDSNVMS  240
NPNLPHGFVH RGVHHPDINA AISQFGLGFG HDLSSMHAQG LSEMVQMASA GNHHLFPSSS  300
SSLHDFSGHN HNQQFQIPTP STNPNLTLSS SSTSQQASAS LPSLQQHHQT LKDSSFSPLF  360
SSSSDNNNNK KPLSPMSATA LLQKAAQMGS TRSNSTTAPS FFAGPTMMSS STAVSPPPPR  420
SSSPMMIQQQ QLNNNFNTNA SRESHNLAPP TLSGVTTSSV DNNNSTNPFG SNRSGLNPVQ  480
QMGLTRDFLG VSNEHHPHQT GRRPFLPQEL ARFAPLG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C7e-43152220371Zinc finger protein JACKDAW
5b3h_F7e-43152220371Zinc 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
PlantRegMapKFK24765.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6214940.0AJ621494.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 3 (idz3 gene).
GenBankAJ6304930.0AJ630493.1 Arabidopsis thaliana mRNA for hypothetical protein, clone At5g03150.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010452174.10.0PREDICTED: zinc finger protein JACKDAW-like
SwissprotQ700D20.0IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A087G4G30.0A0A087G4G3_ARAAL; Uncharacterized protein
STRINGA0A087G4G30.0(Arabis alpina)
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
AT5G03150.10.0C2H2-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]