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 XP_013613030.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 499aa    MW: 54098.2 Da    PI: 9.5813
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013613030.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.97.5e-0583105123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     + C  C+k F r  nL+ H r H
  XP_013613030.1  83 FICDVCKKGFQREQNLQLHRRGH 105
                     89*******************88 PP

2zf-C2H212.80.00037159181123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC +C+k++  +s+ k H +t+
  XP_013613030.1 159 WKCDKCSKRYAVQSDWKAHSKTC 181
                     58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.48E-782105No hitNo description
PfamPF139129.8E-582105IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.1E-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:3.30.160.603.2E-5147180IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.48E-7154179No hitNo description
SMARTSM00355140159179IPR015880Zinc 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: 499 aa     Download sequence    Send to blast
MASSSYNASV VPSSSSSAQP FFLTGSGVGE NDFGQKDTFV SMIQQPNSSA PLPKKRRNQP  60
GNPNPDAEVV ALSPKTIMAT NRFICDVCKK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK  120
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CDKCSKRYAV QSDWKAHSKT  180
CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQETARNPTL SFTSMEAASS GAGSGGLYGR  240
LDGGRTLSHH HLSGHPNSGF SPLAGYNLNI ASSENSRHFV PQTSNPNFLI QSSQGMLTVP  300
NNNDQSFMNH QGLNQFDPVN NINSKSSTNN SFFNLGFFQE NIKNSETSLP SLYSSDVLVH  360
RPEESLNVGS NVSATALLQK ATQMGSITSN DPSALLRGLA SSSSNDFGGG QIMGNDNNGN  420
LQGLMNSLVA VNGGGAGGSG CNIFDVHFGN NGNMSGSDKL TLDFLGVGGM VRNVNRGRGR  480
GGDVGELKFS EQNHPFGRS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C8e-34155221369Zinc finger protein JACKDAW
5b3h_F8e-34155221369Zinc 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013613030.1
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
PlantRegMapRetrieve-
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_013613030.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic
RefseqXP_013613031.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic
SwissprotQ8GYC10.0IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A0D3E7J10.0A0A0D3E7J1_BRAOL; Uncharacterized protein
STRINGBo9g071570.10.0(Brassica oleracea)
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]