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 Sobic.004G047500.1.p
Common NameSb04g004060, SORBIDRAFT_04g004060
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family Whirly
Protein Properties Length: 231aa    MW: 25216.8 Da    PI: 10.1678
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G047500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly187.52.3e-58541902138
                Whirly   2 vyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkv 90 
                           v+k+kaal++++++p+f++l+sg  +++r+G+++l++ +a+++rkyd+ kkq fals+tev++l++l++ esceffhdp++k+sneG v
  Sobic.004G047500.1.p  54 VFKGKAALSIQPILPSFSKLESGGSRVSRNGSIMLTFFPAVGPRKYDFTKKQLFALSPTEVGSLISLGPAESCEFFHDPSMKSSNEGMV 142
                           9**************************************************************************************** PP

                Whirly  91 rkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsll 138
                           +k+l++ Pl   sG+fvn++v ns+ k+n+++svP++kaefav+r+ l
  Sobic.004G047500.1.p 143 KKSLSITPLGSDSGYFVNITVVNSVEKTNDRLSVPITKAEFAVMRTTL 190
                           *********************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.101.6E-7341209IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544474.55E-7046230IPR009044ssDNA-binding transcriptional regulator
PfamPF085362.5E-5754188IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005739Cellular Componentmitochondrion
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 231 aa     Download sequence    Send to blast
MLRLSRFLPS ASRRGFDLKE SLLSGSLTFQ QAVSTSAANI DDNLSSKKYA SYTVFKGKAA  60
LSIQPILPSF SKLESGGSRV SRNGSIMLTF FPAVGPRKYD FTKKQLFALS PTEVGSLISL  120
GPAESCEFFH DPSMKSSNEG MVKKSLSITP LGSDSGYFVN ITVVNSVEKT NDRLSVPITK  180
AEFAVMRTTL SFALPHIMGW DQALTNHHPS PPAISKPRVE RPHPDSEWER *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4kop_A8e-74452078169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B8e-74452078169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C8e-74452078169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D8e-74452078169Single-stranded DNA-binding protein WHY2, mitochondrial
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.122080.0ovary
Functional Description ? help Back to Top
Source Description
UniProtSingle-stranded DNA-binding protein that may be involved in the maintenance of mitochondrial genome stability by preventing break-induced DNA rearrangements. {ECO:0000269|PubMed:21911368}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G047500.1.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
GenBankEU9634570.0EU963457.1 Zea mays clone 262942 DNA binding protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002453336.11e-168single-stranded DNA-binding protein WHY2, mitochondrial
SwissprotD9J0342e-73WHY2_SOLTU; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBLC5XVD21e-167C5XVD2_SORBI; Uncharacterized protein
STRINGSb04g004060.11e-168(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30123885
Representative plantOGRP23161635
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.12e-75WHIRLY 2