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 Lus10022080
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family C2H2
Protein Properties Length: 235aa    MW: 26688.5 Da    PI: 9.3476
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10022080genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.61e-05104126123
                  EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                  ++C++C+k F r  nL+ H r H
  Lus10022080 104 FVCEICKKGFQRDQNLQLHRRGH 126
                  89*******************88 PP
2zf-C2H211.30.001183205123
                  EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                  +kC++C+k +  +s+ k H +t+
  Lus10022080 183 WKCEKCSKIYAVHSDWKAHSKTC 205
                  58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576675.25E-5102127No hitNo description
Gene3DG3DSA:3.30.160.603.8E-5103126IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.887104142IPR007087Zinc finger, C2H2
SMARTSM003550.039104126IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280106126IPR007087Zinc finger, C2H2
SMARTSM00355280148178IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.2E-4171204IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM00355180183203IPR015880Zinc 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: 235 aa     Download sequence    Send to blast
MFPGHAMFNN SAASFSEEED EEDHARLLLV PPHHHQAADN FFNNLITNHQ PAPSSTLFFP  60
NSATVVLPDT SLPPAKAKKK RSLPDPEAEV IALSPKALLA TNRFVCEICK KGFQRDQNLQ  120
LHRRGHNLPW KLKQRNHNKE EPIKKKAYVC PEPSCVHHHP SRALGDLTGI KKHYCRKHGE  180
KKWKCEKCSK IYAVHSDWKA HSKTCGTREY RCDCGTLFSR YVCMSISHNF SLSN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-21179220344Zinc finger protein JACKDAW
5b3h_F1e-21179220344Zinc finger protein JACKDAW
Search in ModeBase
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
PlantRegMapLus10022080
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008465513.19e-96PREDICTED: protein indeterminate-domain 12-like
SwissprotQ9ZWA61e-86IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A1S3CP212e-94A0A1S3CP21_CUCME; protein indeterminate-domain 12-like
STRINGLus100220801e-175(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF18134275
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.19e-89C2H2 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]