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 Carubv10020881m
Common NameCARUB_v10020880mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family Whirly
Protein Properties Length: 235aa    MW: 25678.1 Da    PI: 9.8993
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10020881mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly221.19.6e-69561941139
           Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkal 94 
                      +++k+kaal+v++v+ptf+++dsgnl+l+r+G+l++++++a +erkydWekkq+fals+tev++l++++sk+s+effhdp++k+sn+G+vrk+l
  Carubv10020881m  56 AIFKGKAALSVEPVLPTFTEIDSGNLRLDRRGSLMMTFMPASGERKYDWEKKQKFALSPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSL 149
                      59******************************************************************************************** PP

           Whirly  95 kvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
                      +++P++dGsG+f++l v ns++k+n++++vPv+ aef+v++++++
  Carubv10020881m 150 SIKPHADGSGYFISLGVINSILKTNDRIVVPVTTAEFTVMKTAFS 194
                      ******************************************995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.103.5E-7445210IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544472.82E-6848218IPR009044ssDNA-binding transcriptional regulator
PfamPF085361.1E-5957191IPR013742Plant 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: 235 aa     Download sequence    Send to blast
MMKQARTLLS RSLCDQSKSL FDGASTLRGF ASWSTGSGFS GKEAAKPSGR VFAPYAIFKG  60
KAALSVEPVL PTFTEIDSGN LRLDRRGSLM MTFMPASGER KYDWEKKQKF ALSPTEVGSL  120
ISMGSKDSSE FFHDPSMKSS NAGQVRKSLS IKPHADGSGY FISLGVINSI LKTNDRIVVP  180
VTTAEFTVMK TAFSFVLPHL MGWDRLTDQD GTGTQRTTSH GNTDPQQLEQ EWDK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4kop_A1e-109422072167Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B1e-109422072167Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C1e-109422072167Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D1e-109422072167Single-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
PlantRegMapCarubv10020881m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4935320.0AB493532.1 Arabidopsis thaliana At1g71260 mRNA for hypothetical protein, partial cds, clone: RAAt1g71260.
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_006302758.11e-173single-stranded DNA-binding protein WHY2, mitochondrial isoform X2
SwissprotQ8VYF71e-138WHY2_ARATH; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBLR0GIV01e-172R0GIV0_9BRAS; Uncharacterized protein
STRINGXP_006302759.11e-171(Capsella rubella)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.11e-137WHIRLY 2