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 Brast07G015500.2.p
Organism
Brachypodium stacei
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family Whirly
Protein Properties Length: 268aa    MW: 29589.7 Da    PI: 9.2371
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast07G015500.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly194.71.4e-60922301139
              Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvr 91 
                         s+yk+kaal+ +++ p+f+ ldsg+ k+ ++G++ll++a+a+a r+ydW +kq+f+ls+ e+++l+ l++ +sceffhdp+++ s+eGkvr
  Brast07G015500.2.p  92 SIYKGKAALSFDPRPPQFVPLDSGAYKVAKEGFVLLQFAPAVAARQYDWTRKQVFSLSVWEMGTLLTLGPTDSCEFFHDPFKGRSDEGKVR 182
                         7****************************************************************************************** PP

              Whirly  92 kalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
                         k+lkveP pdG G f+nlsv+n l++ +es+++P++k+e+av+ s ++
  Brast07G015500.2.p 183 KVLKVEPTPDGNGRFFNLSVQNRLLNIDESVYIPITKGEYAVIVSTFN 230
                         *******************************************99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.104.4E-7980252IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544473.37E-7484267IPR009044ssDNA-binding transcriptional regulator
PfamPF085365.9E-5893227IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0032211Biological Processnegative regulation of telomere maintenance via telomerase
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045910Biological Processnegative regulation of DNA recombination
GO:0009508Cellular Componentplastid chromosome
GO:0009570Cellular Componentchloroplast stroma
GO:0003697Molecular Functionsingle-stranded DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0003723Molecular FunctionRNA binding
GO:0042162Molecular Functiontelomeric DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 268 aa     Download sequence    Send to blast
MPPPLSLSLP SPPPPLSLLP HHARAFHSLG IAPPRPPPSS VACSVVPARH SDYFDPRARG  60
PPPPPRDEYG EPPPPLSPAQ GGQSGRVFAS YSIYKGKAAL SFDPRPPQFV PLDSGAYKVA  120
KEGFVLLQFA PAVAARQYDW TRKQVFSLSV WEMGTLLTLG PTDSCEFFHD PFKGRSDEGK  180
VRKVLKVEPT PDGNGRFFNL SVQNRLLNID ESVYIPITKG EYAVIVSTFN YIIPHIMGWS  240
TFTNSIKLEE SQPYSRPQSS PELEWRR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4koq_A3e-90862478169Single-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
PlantRegMapBrast07G015500.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3537950.0AK353795.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1002M22.
GenBankAK3654520.0AK365452.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv2034E15.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020186783.11e-157single-stranded DNA-binding protein WHY1, chloroplastic-like
SwissprotB2LXS71e-138WHY1_MAIZE; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBLA1YKH21e-161A1YKH2_BRASY; Expressed protein
STRINGBRADI1G51040.11e-150(Brachypodium distachyon)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02740.27e-93ssDNA-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]