PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cagra.0549s0001.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C2H2
Protein Properties Length: 517aa    MW: 55634.7 Da    PI: 9.5871
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0549s0001.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.81.9e-0583105123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C  C+k F r  nL+ H r H
  Cagra.0549s0001.1.p  83 FVCDVCNKGFQREQNLQLHRRGH 105
                          89*******************88 PP

2zf-C2H213.30.00024159181123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  Cagra.0549s0001.1.p 159 WKCEKCSKRYAVQSDWKAHSKTC 181
                          58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.68E-782105No hitNo description
Gene3DG3DSA:3.30.160.601.3E-582105IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.004783105IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.03283105IPR007087Zinc finger, C2H2
PROSITE patternPS00028085105IPR007087Zinc finger, C2H2
SMARTSM00355110124154IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.3E-5147180IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.68E-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: 517 aa     Download sequence    Send to blast
MSSSSYNTSV IPSSSSSAQP FFITSSGVGD NDFNRKDPFM SMIQQPNSSA PPPKKRRNQP  60
GNPNPDAEVV ALSPKTLMAT NRFVCDVCNK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK  120
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CEKCSKRYAV QSDWKAHSKT  180
CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQETARNPTV SFTSMAAASS GVGSGGIYGR  240
LGGGSALSHH HMSGHPNSGF NPLAGYNLNI ASSENRRDFV PQSANPNFLL QCSSSQGMLT  300
ATPNNNDQSF MNQHGLIQFD PVDNINLKSS GTNNSFFNLG FFQENTKNSE TSLPSLYSND  360
VLVHHREEEL NTGSNVSATA LLQKATQMGS VTSNDSALFR GLASSSNSSS LIGNHFGGGR  420
IMENDNNGNL QGLMNSLAAV NGGSSGSGGN IFDVHFGNNG NMSGSDKLTL DFLGVGGMVR  480
NANRGGGGGG RGSGRGGVSL DGEAKFPEQN HPFGRG*
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
PlantRegMapCagra.0549s0001.1.p
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
GenBankAK1177330.0AK117733.1 Arabidopsis thaliana At2g02080 mRNA for putative C2H2-type zinc finger protein, complete cds, clone: RAFL17-41-L01.
GenBankBT0058970.0BT005897.1 Arabidopsis thaliana At2g02080 gene, complete cds.
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
TrEMBLR0HIV80.0R0HIV8_9BRAS; Uncharacterized protein
STRINGCagra.0549s0001.1.p0.0(Capsella grandiflora)
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. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]