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 Tp2g13500
Organism
Thellungiella parvula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family C2H2
Protein Properties Length: 521aa    MW: 56366.4 Da    PI: 9.6733
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp2g13500genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.97.9e-0583105123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                + C  C+k F r  nL+ H r H
  Tp2g13500  83 FICDVCKKGFQREQNLQLHRRGH 105
                89*******************88 PP
2zf-C2H213.30.00024159181123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+k++  +s+ k H +t+
  Tp2g13500 159 WKCEKCSKRYAVQSDWKAHSKTC 181
                58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.07E-782105No hitNo description
Gene3DG3DSA:3.30.160.606.4E-582105IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.01483105IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.61683105IPR007087Zinc finger, C2H2
PROSITE patternPS00028085105IPR007087Zinc finger, C2H2
SMARTSM00355110124154IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.3E-5147180IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.07E-7154179No hitNo description
SMARTSM00355130159179IPR015880Zinc 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: 521 aa     Download sequence    Send to blast
MSSSSYNTTV VPSSSSSAQP FFLTGSGAGD NDFDRKDTFM SMIQQPNSSA PPPKKRRNQP  60
GNPNPDAEVV ALSPKTLMAT NRFICDVCKK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK  120
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CEKCSKRYAV QSDWKAHSKT  180
CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQESVRNPTV SFTSMASAGS GAGSGGFYGR  240
LDGGNALSHH HLNDHPNSGF SPLAGYNLNI ASSENSRDFV PQTSNPNFLI QCSSSQGMLA  300
VPNNSNNNNN DQSFMNQQGL IQFDPVNNIN FKNSTNNSFF NLGFFQENTK NSETSLPSLY  360
STDGLVHRRE ESLNASSNVS ATALLQKATQ MGSITSNDPS GLFRGFASSS NPSSVVVNDF  420
GGGQIMGNDN NGNLQGLMNS LVAVNGGGAG GSGGNIFDVH FGNNGNMSGS DKLTLDFLGV  480
GGMVRNVNRG GGGGGRGRGR GDVSLDGKLK FPEQNHPFGR P
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-33155221369Zinc finger protein JACKDAW
5b3h_F2e-33155221369Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00256DAPTransfer from AT2G02080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp2g13500
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM2229240.0HM222924.1 Thellungiella parvula phosphatase, cyclin J18, clathrin assembly protein-related protein, BPC1, SGR5/ATIDD15, leucine-rich receptor kinase, endomemebrane protein 70, salt overly sensitive 1, glutamate decarboxylae 4, oligopeptide transport protein, peptide transporter, and NADH-ubiquinone oxidoreductase B18 genes, complete cds; and unknown genes.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006290880.10.0protein indeterminate-domain 4, chloroplastic
RefseqXP_023638726.10.0protein indeterminate-domain 4, chloroplastic
RefseqXP_023638727.10.0protein indeterminate-domain 4, chloroplastic
SwissprotQ8GYC10.0IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLE5F7110.0E5F711_9BRAS; Uncharacterized protein
STRINGXP_006290879.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM36781759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.10.0indeterminate(ID)-domain 4
Publications ? help Back to Top
  1. Oh DH, et al.
    Genome structures and halophyte-specific gene expression of the extremophile Thellungiella parvula in comparison with Thellungiella salsuginea (Thellungiella halophila) and Arabidopsis.
    Plant Physiol., 2010. 154(3): p. 1040-52
    [PMID:20833729]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]