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 462931688
Organism
Eragrostis tef
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Eragrostideae; Eragrostidinae; Eragrostis
Family Whirly
Protein Properties Length: 155aa    MW: 17348.7 Da    PI: 9.9958
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
462931688genomeTefView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly64.91.6e-202376154
     Whirly  1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqs 54
               s+yk+kaal+ +++ p+f+ ldsg+ k+ ++G +ll++a+a+a+r+ydW++kq 
  462931688 23 SIYKGKAALSFDPRPPQFVPLDSGAYKVAKEGCVLLQFAPAVATRQYDWSRKQI 76
               7***************************************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.101.4E-271076IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544471.18E-4516155IPR009044ssDNA-binding transcriptional regulator
PfamPF085361.1E-192476IPR013742Plant transcription factor
Gene3DG3DSA:2.30.31.102.9E-1590140IPR009044ssDNA-binding transcriptional regulator
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0045910Biological Processnegative regulation of DNA recombination
GO:0009570Cellular Componentchloroplast stroma
GO:0003677Molecular FunctionDNA binding
GO:0003723Molecular FunctionRNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 155 aa     Download sequence    Send to blast
SRDGYGRSPA NGAQDGRVFT SYSIYKGKAA LSFDPRPPQF VPLDSGAYKV AKEGCVLLQF  60
APAVATRQYD WSRKQIRASF FMTLLRGGGV QNRLLNIDES IYIPISKGEF AVIVSTLNFI  120
IPHLMGWSTF TSSIKPEDSR SYSRPQSGPE FEWQR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1l3a_A2e-481215432219p24: plant transcriptional regulator PBF-2
1l3a_B2e-481215432219p24: plant transcriptional regulator PBF-2
1l3a_C2e-481215432219p24: plant transcriptional regulator PBF-2
1l3a_D2e-481215432219p24: plant transcriptional regulator PBF-2
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtSingle-stranded DNA and RNA binding protein that maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. Functions in RNA metabolism and is involved in the maturation of the atpF and 23S ribosomal RNAs. {ECO:0000269|PubMed:18676978, ECO:0000269|PubMed:19666500}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap462931688
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0433601e-59BT043360.1 Zea mays full-length cDNA clone ZM_BFc0169P08 mRNA, complete cds.
GenBankBT0622971e-59BT062297.1 Zea mays full-length cDNA clone ZM_BFb0277C12 mRNA, complete cds.
GenBankBT0630341e-59BT063034.1 Zea mays full-length cDNA clone ZM_BFc0018K04 mRNA, complete cds.
GenBankEU5956641e-59EU595664.1 Zea mays Whirly family nucleic acid binding protein (WHY1) mRNA, complete cds.
GenBankEU9558611e-59EU955861.1 Zea mays clone 1549286 DNA-binding protein p24 mRNA, complete cds.
GenBankJX4699721e-59JX469972.1 Zea mays subsp. mays clone UT3235 WHIRLY-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004964538.12e-83single-stranded DNA-binding protein WHY1, chloroplastic isoform X2
SwissprotB2LXS72e-76WHY1_MAIZE; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBLA0A2T8JET65e-79A0A2T8JET6_9POAL; Uncharacterized protein
STRINGSi006951m3e-77(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30123885
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02740.21e-51ssDNA-binding transcriptional regulator
Publications ? help Back to Top
  1. Soderlund C, et al.
    Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.
    PLoS Genet., 2009. 5(11): p. e1000740
    [PMID:19936069]