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 Araha.1277s0006.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 596aa    MW: 63804.9 Da    PI: 9.3515
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.1277s0006.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.13.1e-0581103123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C+ C+k F r  nL+ H r H
  Araha.1277s0006.1.p  81 FICEVCNKGFQREQNLQLHRRGH 103
                          89*******************88 PP
2zf-C2H212.50.00045157179123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC +C+k++  +s+ k H +t+
  Araha.1277s0006.1.p 157 WKCDKCSKRYAVQSDWKAHSKTC 179
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.7E-680103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.64E-780103No hitNo description
PfamPF121712.9E-581103IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.005281103IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9981103IPR007087Zinc finger, C2H2
PROSITE patternPS00028083103IPR007087Zinc finger, C2H2
SMARTSM00355110122152IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.0E-5145178IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.64E-7152177No hitNo description
SMARTSM00355140157177IPR015880Zinc 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: 596 aa     Download sequence    Send to blast
MAASSSSAAS FFGVRQDDQS HLLPPNSSAA APPPPPPHHQ TPLPPLEAPP QKKKRNQPRT  60
PNSDAEVIAL SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKSTKEVKRK  120
VYLCPEPSCV HHDPSRALGD LTGIKKHYYR KHGEKKWKCD KCSKRYAVQS DWKAHSKTCG  180
TKEYRCDCGT LFSRRDSFIT HRAFCDALAQ ESARHPTSLT SLPSHHFPYG QNTNNSNNNT  240
SSMILGLSHM GAPQNHDHQS GDVLRLGSGG GGAASRSASD LIAANASGYF MQEQNPSFHD  300
QQDHHHHHQQ GFLAANNNIK PSPMSFQQNL MQFSHDNHNS ASSNLFNLSF LSGNNGVTSA  360
TSNPNAANAA AVSSGNLMIS NHFDGENAVG GGGGEGSTGL FPNNLMSSAD RISSGSVPSL  420
FSSSMQNPNS APHMSATALL QKAAQMGSTS SNNNNGSNNN NNNNASSILR SFGSGIYGEN  480
ESNLQDLMNS FSNPGATGNV NGVDSPFGSY GGVNKGLSAD KQSMTRDFLG VGQIVRSMSG  540
SGGFQQQQQQ QQQHGNSRER VGSSSDSADR SSMNVNTGGG PANTSPPYGI HHASF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-33153214364Zinc finger protein JACKDAW
5b3h_F3e-33153214364Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00255DAPTransfer from AT2G02070Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.1277s0006.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6214950.0AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene).
GenBankAY0561740.0AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBankBT0012150.0BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010502220.10.0PREDICTED: protein indeterminate-domain 5, chloroplastic-like
RefseqXP_018434643.10.0PREDICTED: protein indeterminate-domain 5, chloroplastic-like
SwissprotQ9ZUL30.0IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A397Y3X10.0A0A397Y3X1_BRACM; Uncharacterized protein
TrEMBLM4FIP50.0M4FIP5_BRARP; Uncharacterized protein
STRINGBostr.0556s0033.1.p0.0(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43732654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.10.0indeterminate(ID)-domain 5
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]