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 Niben101Scf00751g06028.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family C2H2
Protein Properties Length: 107aa    MW: 12718.6 Da    PI: 10.4667
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00751g06028.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.11.5e-051639223
                              EET..TTTEEESSHHHHHHHHHHT CS
                   zf-C2H2  2 kCp..dCgksFsrksnLkrHirtH 23
                              +Cp   Cgk F+++ +  +H+r+H
  Niben101Scf00751g06028.1 16 RCPieGCGKKFTSHKYALVHQRVH 39
                              69999*****************99 PP
2zf-C2H210.90.00154669223
                              EET..TTTEEESSHHHHHHHHHHT CS
                   zf-C2H2  2 kCp..dCgksFsrksnLkrHirtH 23
                              +Cp   C+++F+     + H+r+H
  Niben101Scf00751g06028.1 46 RCPwkGCTMTFKWAWARTEHLRVH 69
                              79999*****************99 PP
3zf-C2H2163.5e-0575101123
                               EEET..TTTEEESSHHHHHHHHHH..T CS
                   zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt..H 23 
                               ykC+   Cg sF+  s++ rH r+  H
  Niben101Scf00751g06028.1  75 YKCKveGCGLSFRFVSDYSRHRRKtgH 101
                               9**********************9777 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.25E-8352No hitNo description
Gene3DG3DSA:3.30.160.601.1E-61543IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.1751544IPR007087Zinc finger, C2H2
SMARTSM003550.0241539IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002801739IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.4E-104469IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.5314574IPR007087Zinc finger, C2H2
SMARTSM003550.00284569IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002804769IPR007087Zinc finger, C2H2
SuperFamilySSF576676.53E-125597No hitNo description
Gene3DG3DSA:3.30.160.601.4E-127098IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.3375101IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.78575106IPR007087Zinc finger, C2H2
PROSITE patternPS00028077101IPR007087Zinc finger, C2H2
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: 107 aa     Download sequence    Send to blast
MSFQTKVELQ VHKRNRCPIE GCGKKFTSHK YALVHQRVHE NDRPLRCPWK GCTMTFKWAW  60
ARTEHLRVHT GERPYKCKVE GCGLSFRFVS DYSRHRRKTG HYVEAAN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6a57_A3e-53110732138Lysine-specific demethylase REF6
6a58_A3e-53110732138Lysine-specific demethylase REF6
6a59_A3e-53110732138Lysine-specific demethylase REF6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016451016.18e-72PREDICTED: probable lysine-specific demethylase ELF6
RefseqXP_016451017.18e-72PREDICTED: probable lysine-specific demethylase ELF6
SwissprotQ6BDA03e-53ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLA0A1J6J3Z31e-70A0A1J6J3Z3_NICAT; Putative lysine-specific demethylase elf6
STRINGXP_009589507.12e-70(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA49882331
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.11e-55C2H2 family protein
Publications ? help Back to Top
  1. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Crevillén P, et al.
    Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state.
    Nature, 2014. 515(7528): p. 587-90
    [PMID:25219852]
  4. Yang H,Howard M,Dean C
    Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74
    [PMID:27482092]