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 Lsa018113
Organism
Lactuca sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca
Family C2H2
Protein Properties Length: 491aa    MW: 54236.4 Da    PI: 9.9406
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Lsa#S58695889PU_refUnigeneView CDS
PUT-187a-Lactuca_sativa-13029PU_unrefplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.4e-056890123
               EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
               ++C++C+k F r  nL+ H r H
  Lsa018113 68 FVCEICNKGFQRDQNLQLHRRGH 90
               89*******************88 PP
2zf-C2H212.80.00036145167123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+k +  +s+ k H +t+
  Lsa018113 145 WKCEKCSKKYAVQSDWKAHSKTC 167
                58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.64E-76790No hitNo description
Gene3DG3DSA:3.30.160.601.6E-56790IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121717.8E-56890IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.9496890IPR007087Zinc finger, C2H2
SMARTSM003550.0176890IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807090IPR007087Zinc finger, C2H2
SMARTSM00355110110140IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-4133166IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.64E-7140165No hitNo description
SMARTSM00355140145165IPR015880Zinc 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: 491 aa     Download sequence    Send to blast
MSGEMFPITH HHNHQPPPPP PPPLHEAPNP NPKAISNLKK KRNLPGTPDP DAEVMALSPK  60
SLMATNRFVC EICNKGFQRD QNLQLHRRGH NLPWKLKQRN NKEPIKKKVY ICPEKSCVHH  120
DPSRALGDLT GIKKHFSRKH GEKKWKCEKC SKKYAVQSDW KAHSKTCGTR EYKCDCGTLF  180
SRKDSFITHR AFCDALAEES VRLTTVTPNS LGLKNEAMNE SVMNPNFPHG FSGMTQFGSG  240
FRSDFGDQNN KPRLSLWLDQ ANSQLNLSPM DQMAMNSNLY MSSSSAGLAD MVNVFGSSPM  300
TNFTNSNQIP SLSLTPEGLK EETLASLYSM NQTHQTESTG PMSATALLQK AAQMGSTRSN  360
PSIFGSSFGL MNSSTTSNTA VSLVNNNNNN NINIPTSLPH IATQPQVSTP MNNNSSNSSP  420
QARQQMIMSR NETMPPLKMM QRSFSGVDNG LTRDFLGMGG EGGRPLMPQD LVKFASYGST  480
MGSMRHFASN N
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-38141210372Zinc finger protein JACKDAW
5b3h_F3e-38141210372Zinc 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}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023767838.10.0zinc finger protein JACKDAW
SwissprotQ700D21e-132IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A2J6L5230.0A0A2J6L523_LACSA; Uncharacterized protein
STRINGcassava4.1_032876m1e-179(Manihot esculenta)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-117C2H2-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]