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 Cucsa.237770.1
Common NameCsa_5G647290, LOC101219085
Organism
Cucumis sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family Whirly
Protein Properties Length: 242aa    MW: 26742.6 Da    PI: 10.0475
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.237770.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly1911.9e-59652002137
          Whirly   2 vyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkv 96 
                     vyk+kaal++++ +ptf++++sgn++++r+G+++l++a+a++erkydW +kq falsate+++l++l++++sceffhdp++ +s +G+vrk+l +
  Cucsa.237770.1  65 VYKGKAALSMEPCMPTFTKVESGNFIMDRRGSIMLTFAPAVGERKYDWTRKQLFALSATEIGSLISLGPRDSCEFFHDPGMLSSTAGQVRKSLAI 159
                     9********************************************************************************************** PP

          Whirly  97 ePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsl 137
                     + ++dG G+f++l+v n+ +++n+++svP + +ef+v++++
  Cucsa.237770.1 160 KAHTDGNGYFFSLNVVNKPQNTNDYLSVPFTTGEFSVMKTA 200
                     ***************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.101.2E-7153217IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544472.28E-6157240IPR009044ssDNA-binding transcriptional regulator
PfamPF085369.9E-5865199IPR013742Plant 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: 242 aa     Download sequence    Send to blast
MMKLTRLFSR NQLFEQIVWK KAGYVGHPLG SHPFSSNAGI SDSTQNFTRT VTKNAGGRVF  60
ASYHVYKGKA ALSMEPCMPT FTKVESGNFI MDRRGSIMLT FAPAVGERKY DWTRKQLFAL  120
SATEIGSLIS LGPRDSCEFF HDPGMLSSTA GQVRKSLAIK AHTDGNGYFF SLNVVNKPQN  180
TNDYLSVPFT TGEFSVMKTA CSFALPSLLG WDRVTNPNLG VGSVFQPKKI DREALSLEWE  240
R*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3n1h_A2e-77572169168StWhy2
3n1i_A2e-77572169168protein StWhy2
3n1j_A2e-77572169168Protein StWhy2
3n1k_A2e-77572169168protein StWhy2
3n1l_A2e-77572169168protein StWhy2
Search in ModeBase
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6818898e-40LN681889.1 Cucumis melo genomic scaffold, anchoredscaffold00051.
GenBankLN7132638e-40LN713263.1 Cucumis melo genomic chromosome, chr_9.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004141520.10.0PREDICTED: single-stranded DNA-bindig protein WHY2, mitochondrial
SwissprotD9J0349e-83WHY2_SOLTU; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBLA0A0A0KXS20.0A0A0A0KXS2_CUCSA; Uncharacterized protein
STRINGXP_004141520.10.0(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF113833338
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.11e-77WHIRLY 2
Publications ? help Back to Top
  1. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  2. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  3. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]