PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Lsa002803
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: 456aa    MW: 50571.8 Da    PI: 8.3857
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Lsa#S58692316PU_unrefUnigeneView CDS
PUT-187a-Lactuca_sativa-39521PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.81.9e-056284123
               EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
               ++C++C+k F r  nL+ H r H
  Lsa002803 62 FVCEICSKGFQRDQNLQLHRRGH 84
               89*******************88 PP
2zf-C2H2120.00063139161123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+k +  +s+ k H + +
  Lsa002803 139 WKCEKCSKKYAVQSDWKAHSKIC 161
                58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576677.37E-76184No hitNo description
Gene3DG3DSA:3.30.160.605.3E-56184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.8876284IPR007087Zinc finger, C2H2
SMARTSM003550.0366284IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
SMARTSM00355110104134IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.3E-4126160IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576677.37E-7134159No hitNo description
SMARTSM00355140139159IPR015880Zinc 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: 456 aa     Download sequence    Send to blast
MMSGDGFSSS PSLTAFIHDP ITNPNPNSSS SAKRKRNLPG NPDPDAEVIA LSPKSLMATN  60
RFVCEICSKG FQRDQNLQLH RRGHNLPWKL KQRNKQEVVR KKVYICPEKS CVHHDPSRAL  120
GDLTGVKKHF SRKHGERKWK CEKCSKKYAV QSDWKAHSKI CGTREYKCDC GTLFSRKDSF  180
ITHRAFCDAL TEENSKTASF PVVQTSTNLN FQSDLMMMSD GDRIGNPRFP GMFGGLQKST  240
DGNGIRPRLP SWLHHHNNNN MNHHENPTTN SSFLGSSSSN NNHGGIGILS SEMMQWLSRS  300
HDSVETFTQL PQGLSLKEEE DNNKGEMQLN PLYSTYDGCP NMPPPPPHMS ATALLQKASQ  360
MGSTRSCNNS GGFGLMGTSE LSGFISSNQN RNNGGDHNMN DGMMNGDGLM MMMMMAEVKQ  420
NSGEGNLTRD FLGMEQELIN FSCSMNDPSI GFSGSQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-36135200368Zinc finger protein JACKDAW
5b3h_F6e-36135200368Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
190101KQRNKQEVVRKK
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_023751517.10.0zinc finger protein JACKDAW-like isoform X1
SwissprotQ700D21e-114IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A2J6M5Q20.0A0A2J6M5Q2_LACSA; Uncharacterized protein
STRINGXP_009771226.11e-144(Nicotiana sylvestris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-115C2H2-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]