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 Sme2.5_02452.1_g00001.1
Organism
Solanum melongena
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family C2H2
Protein Properties Length: 481aa    MW: 53351.9 Da    PI: 9.6542
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sme2.5_02452.1_g00001.1genomeEGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-056587123
                             EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                             + C++C+k F r  nL+ H r H
  Sme2.5_02452.1_g00001.1 65 FICEICNKGFQRDQNLQLHRRGH 87
                             89*******************88 PP
2zf-C2H212.80.00035142164123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              +kC++C+k +  +s+ k H +t+
  Sme2.5_02452.1_g00001.1 142 WKCEKCSKKYAVQSDWKAHSKTC 164
                              58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.22E-76487No hitNo description
Gene3DG3DSA:3.30.160.601.3E-56487IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121715.7E-56587IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.8456587IPR007087Zinc finger, C2H2
SMARTSM003550.0226587IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806787IPR007087Zinc finger, C2H2
SMARTSM00355110107137IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-4130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.22E-7137162No hitNo description
SMARTSM00355140142162IPR015880Zinc 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: 481 aa     Download sequence    Send to blast
MMSGDVFSFP SSVKAVLPHH QELQTNPNPK PNTSSKKRRN LPGTPDPDAE VIALSPKSLM  60
ATNRFICEIC NKGFQRDQNL QLHRRGHNLP WKLKQRNKLE QVKKKVYICP EKTCIHHDPS  120
RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKTCGTREYK CDCGTIFSRK  180
DSFITHRAFC DALAEESSRI TSVGANNLIN FPNNATLLNQ QQSNLHGGFT GFRPDFGSYS  240
TGNSNSLHHQ HQKPRLSLWL DQQAAANQNT PLQISPSSNL FDNSSTGEFQ EMMQIQPQNV  300
FGSSNSTAPN FSMAEAFSSL YSDSQNSQLT KQNSTTPMSA TALLQKAAQL GSTKSNQSTF  360
FANNFSKLNS SSSSSPNLTT DQIFAKKSED YATSLLQSND GLIGCQNFSS SGINKAINLD  420
QTIMQTVGVQ RTQGVSMNGM DNCLTRDFLG IRHEGNCQFL PQDIVKFVSM SSSAMGLSHL  480
Q
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-38138207372Zinc finger protein JACKDAW
5b3h_F2e-38138207372Zinc 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755220.0HG975522.1 Solanum lycopersicum chromosome ch10, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015056208.10.0zinc finger protein JACKDAW-like
SwissprotQ700D21e-119IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLM1APA70.0M1APA7_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000271590.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-107C2H2-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]