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 evm.model.supercontig_45.59
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family C2H2
Protein Properties Length: 492aa    MW: 53802.1 Da    PI: 9.9886
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_45.59genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23e-055779123
                                 EEETTTTEEESSHHHHHHHHHHT CS
                      zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                                 + C++C+k F r  nL+ H r H
  evm.model.supercontig_45.59 57 FICEICNKGFQRDQNLQLHRRGH 79
                                 89*******************88 PP

2zf-C2H212.80.00036133155123
                                  EEETTTTEEESSHHHHHHHHHHT CS
                      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                  +kC++C+k +  +s+ k H +t+
  evm.model.supercontig_45.59 133 WKCEKCSKKYAVQSDWKAHSKTC 155
                                  58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.82E-75679No hitNo description
Gene3DG3DSA:3.30.160.601.3E-55679IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0225779IPR015880Zinc finger, C2H2-like
PfamPF121715.9E-55779IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.8455779IPR007087Zinc finger, C2H2
PROSITE patternPS0002805979IPR007087Zinc finger, C2H2
SMARTSM0035510098128IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-4121154IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.82E-7128153No hitNo description
SMARTSM00355140133153IPR015880Zinc 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: 492 aa     Download sequence    Send to blast
MPSSTGGFVH QEQNPNPNPK PNPNPAAKKK RNLPGTPDPD AEVIALSPKT LMATNRFICE  60
ICNKGFQRDQ NLQLHRRGHN LPWKLRQRSN KEVKKKVYIC PEKTCVHHDP SRALGDLTGI  120
KKHFSRKHGE KKWKCEKCSK KYAVQSDWKA HSKTCGTREY KCDCGTLFSR KDSFITHRAF  180
CDALAEESAR ITSVATTDLN FRNDSTVNLP HGFTSRGVQD HVAAISQFGS GLTQDFNGIP  240
TSGFPEMVQM TSANLYGSSS MSNFGHHQFQ GFDKSTSAIP TSASLTLSPL PQGVLKEETK  300
GNLVESFSPP LYSETQSKQS KPAAPMSATA LLQKAAQMGS TRSNQSFFGN TFGVMTSSSS  360
QTASFSSTHN RNRSTHDQVY NQNVKQHGNN FVVMSSDHGV LGSSIPNAAT TNNNNNNNLE  420
QMMMQTGAPK QNEATHLKLH PGSTSIDQHS LTRDFLGVSG DQSGRPFLAQ ELAKFASLGS  480
TMGLSQFTSN N*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-38129195369Zinc finger protein JACKDAW
5b3h_F2e-38129195369Zinc 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
PlantRegMapevm.model.supercontig_45.59
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_021899442.10.0zinc finger protein JACKDAW
SwissprotQ700D21e-157IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A061EZX00.0A0A061EZX0_THECC; C2H2-like zinc finger protein, putative
STRINGevm.model.supercontig_45.590.0(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-132C2H2-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]