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 Do020576.1
Organism
Dichanthelium oligosanthes
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Dichantheliinae; Dichanthelium
Family Whirly
Protein Properties Length: 268aa    MW: 29710.9 Da    PI: 9.76
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Do020576.1genomeDichanView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly198.77.7e-62932311139
      Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkvePl 99 
                 s+yk+kaal+ +++ p+f+ ldsg+ k+ ++G++ll++a+a+a+r+ydW +kq+f+ls+ e+++l+ l++ +sceffhdp+++ s+eGkvrk+lkveP 
  Do020576.1  93 SIYKGKAALSFDPRPPQFVPLDSGAYKVAKEGFVLLQFAPAVATRQYDWTRKQVFSLSVWEIGTLLTLGPTDSCEFFHDPFKGRSEEGKVRKVLKVEPT 191
                 7************************************************************************************************** PP

      Whirly 100 pdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
                 pdG G f+nlsv+n l++++es+++P++k+efav+ s ++
  Do020576.1 192 PDGNGRFFNLSVQNRLLNVDESIYIPITKGEFAVIVSTFN 231
                 ***********************************99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.108.5E-8081253IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544471.26E-7586268IPR009044ssDNA-binding transcriptional regulator
PfamPF085368.6E-5994228IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045910Biological Processnegative regulation of DNA recombination
GO:0009508Cellular Componentplastid chromosome
GO:0009570Cellular Componentchloroplast stroma
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0003723Molecular FunctionRNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 268 aa     Download sequence    Send to blast
MPPPAPLFLS LPSPPPPPLL PVHHHPKAPQ ALSLAPPLAS SRRLALPACP VASSRHSDYF  60
DPRAPPPPPP RGDGGYGRPP NGAHEGRVFT SYSIYKGKAA LSFDPRPPQF VPLDSGAYKV  120
AKEGFVLLQF APAVATRQYD WTRKQVFSLS VWEIGTLLTL GPTDSCEFFH DPFKGRSEEG  180
KVRKVLKVEP TPDGNGRFFN LSVQNRLLNV DESIYIPITK GEFAVIVSTF NYIIPHLMGW  240
STFTSSIKPE ESRAYSRPQS APEYEWRR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1l3a_A1e-895526712219p24: plant transcriptional regulator PBF-2
1l3a_B1e-895526712219p24: plant transcriptional regulator PBF-2
1l3a_C1e-895526712219p24: plant transcriptional regulator PBF-2
1l3a_D1e-895526712219p24: plant transcriptional regulator PBF-2
4koq_A8e-90872488169Single-stranded DNA-binding protein WHY3, chloroplastic
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
PlantRegMapDo020576.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0433600.0BT043360.1 Zea mays full-length cDNA clone ZM_BFc0169P08 mRNA, complete cds.
GenBankEU5956640.0EU595664.1 Zea mays Whirly family nucleic acid binding protein (WHY1) mRNA, complete cds.
GenBankJX4699720.0JX469972.1 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_004964537.11e-171single-stranded DNA-binding protein WHY1, chloroplastic isoform X1
SwissprotB2LXS71e-168WHY1_MAIZE; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBLA0A1E5VFR30.0A0A1E5VFR3_9POAL; Single-stranded DNA-binding protein WHY1, chloroplastic
STRINGSi006951m1e-169(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-95ssDNA-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]