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 evm_27.model.AmTr_v1.0_scaffold00099.92
Common NameAMTR_s00099p00109140
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family Whirly
Protein Properties Length: 250aa    MW: 27669.2 Da    PI: 9.8449
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00099.92genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly185.78.2e-58712082139
                                   Whirly   2 vyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlask 71 
                                              ++k+kaalk++++ p+f++l+ ++++++r+G +ll++ +a+++rkydW+k+q falsatev+++++l++ 
  evm_27.model.AmTr_v1.0_scaffold00099.92  71 IFKGKAALKMDPIGPKFSKLNPDSMRIERRGCVLLTFFPAIGVRKYDWQKRQIFALSATEVGSVISLGPT 140
                                              9********************************************************************* PP

                                   Whirly  72 esceffhdpaakgsneGkvrkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
                                              +sceffhdp+ k+s+eG+vrk+l++ P +d sG+f+nl+vtn ++k+ +++svPv+kae +v++s+++
  evm_27.model.AmTr_v1.0_scaffold00099.92 141 DSCEFFHDPSLKKSDEGQVRKSLHIAPNSDNSGHFFNLQVTNAIQKTMDRLSVPVAKAELSVMQSAFS 208
                                              *****************************************************************995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.102.1E-6667223IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544477.69E-6067232IPR009044ssDNA-binding transcriptional regulator
PfamPF085363.4E-5871206IPR013742Plant 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: 250 aa     Download sequence    Send to blast
MTTTHLQIPI YPYHGRSIGG RALTFKQLPA KAVCTDIPCL YHRTSRVGIS TVSGDLGING  60
SLCKLSVPYC IFKGKAALKM DPIGPKFSKL NPDSMRIERR GCVLLTFFPA IGVRKYDWQK  120
RQIFALSATE VGSVISLGPT DSCEFFHDPS LKKSDEGQVR KSLHIAPNSD NSGHFFNLQV  180
TNAIQKTMDR LSVPVAKAEL SVMQSAFSFI LPHLMGWDRI ANPMMRLAPE NLPSPNIVRL  240
PPSEVEWDR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4kop_A9e-686422010166Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B9e-686422010166Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C9e-686422010166Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D9e-686422010166Single-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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011621002.11e-171single-stranded DNA-binding protein WHY2, mitochondrial isoform X2
SwissprotQ8VYF71e-71WHY2_ARATH; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBLW1NVW10.0W1NVW1_AMBTC; Uncharacterized protein
STRINGERM997370.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP23161635
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.16e-74WHIRLY 2
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]