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 Lj1g3v4914260.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family C2H2
Protein Properties Length: 185aa    MW: 21402.3 Da    PI: 9.8412
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj1g3v4914260.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.83.9e-05828323
                     ETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                     C++C+k F r  nL+ H r H
  Lj1g3v4914260.1  8 CEICNKGFQRDQNLQLHRRGH 28
                     *******************88 PP
2zf-C2H2187.8e-0682104123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      +kC +C+k++  +s+ k H++t+
  Lj1g3v4914260.1  82 WKCDKCSKRYAVQSDWKAHQKTC 104
                      58*******************98 PP
3zf-C2H211.20.0011112130523
                      TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                      dCg+ Fsr++++ +H   +
  Lj1g3v4914260.1 112 DCGTIFSRRDSFITHRAFC 130
                      8**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.07E-8528No hitNo description
Gene3DG3DSA:3.30.160.606.3E-6528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.11628IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.824628IPR007087Zinc finger, C2H2
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
SMARTSM00355754777IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.3E-670103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.07E-877103No hitNo description
SMARTSM003558982102IPR015880Zinc 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: 185 aa     Download sequence    Send to blast
MATNRFLCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTSN EVKKRVYVCP EPSCVHHNPA  60
RALGDLTGIK KHYSRKHGEK KWKCDKCSKR YAVQSDWKAH QKTCGTREYK CDCGTIFSRR  120
DSFITHRAFC DALTEENNRV NQGLTSGMPQ NMQSQMPDLM STMPLRGTSS NTASEFNDYD  180
PKTSL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-3678141366Zinc finger protein JACKDAW
5b3h_F2e-3678141366Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj1g3v4914260.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2353491e-136AC235349.1 Glycine max strain Williams 82 clone GM_WBb0092H01, complete sequence.
GenBankHQ8407701e-136HQ840770.1 Phaseolus vulgaris clone BAC B1-157 genotype G19833, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_029127062.11e-126zinc finger protein GAI-ASSOCIATED FACTOR 1
SwissprotQ9ZWA64e-92IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A151TW901e-125A0A151TW90_CAJCA; Zinc finger protein MAGPIE
STRINGGLYMA19G39640.21e-124(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21923085
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.21e-94C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]