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 894964
Common NameARALYDRAFT_894964
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family Whirly
Protein Properties Length: 243aa    MW: 26762.6 Da    PI: 10.3625
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
894964genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly231.84.9e-72632011139
  Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkvePlpdGs 103
             s++k+kaal+v++v+p+f+++dsgnl+++r+G+l++++++a++erkydWekkq+fals+tev++l++++sk+s+effhdp++k+sn+G+vrk+l+++P++dGs
  894964  63 SIFKGKAALSVEPVLPSFTEIDSGNLRIDRRGSLMMTFMPAIGERKYDWEKKQKFALSPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSIKPHADGS 165
             79***************************************************************************************************** PP

  Whirly 104 GlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
             G+f++lsv+n+++k+n++f+vPv+kaefav++++++
  894964 166 GYFISLSVNNGILKTNDYFVVPVTKAEFAVMKTAFS 201
             *********************************995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.103.6E-7553216IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544474.79E-7655242IPR009044ssDNA-binding transcriptional regulator
PfamPF085361.1E-6064198IPR013742Plant 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: 243 aa     Download sequence    Send to blast
MMKQARTLLS RSLCDHSKSL FEERVKASTL RGFASWSSSS TPGRGFSGKD APKPSGRLFA  60
PYSIFKGKAA LSVEPVLPSF TEIDSGNLRI DRRGSLMMTF MPAIGERKYD WEKKQKFALS  120
PTEVGSLISM GSKDSSEFFH DPSMKSSNAG QVRKSLSIKP HADGSGYFIS LSVNNGILKT  180
NDYFVVPVTK AEFAVMKTAF SFALPHIMGW NRLTGQGNTE ALPPRNVTHL KTDPQLELEW  240
DK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4kop_A1e-119492162169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B1e-119492162169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C1e-119492162169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D1e-119492162169Single-stranded DNA-binding protein WHY2, mitochondrial
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtSingle-stranded DNA-binding protein that associates with mitochondrial DNA and may play a role in the regulation of the gene expression machinery. Seems also to be required to prevent break-induced DNA rearrangements in the mitochondrial genome. Can bind to melt double-stranded DNA in vivo. {ECO:0000269|PubMed:18423020, ECO:0000269|PubMed:20551348, ECO:0000269|PubMed:22762281}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap894964
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0721100.0AY072110.1 Arabidopsis thaliana unknown protein (At1g71260) mRNA, complete cds.
GenBankAY1229610.0AY122961.1 Arabidopsis thaliana unknown protein (At1g71260) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002888827.11e-179single-stranded DNA-binding protein WHY2, mitochondrial isoform X1
SwissprotQ8VYF71e-165WHY2_ARATH; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBLD7KYT21e-178D7KYT2_ARALL; ATWHY2
STRINGscaffold_202038.11e-179(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM123582731
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.11e-168WHIRLY 2