PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00103176001

Common Name

GSBRNA2T00103176001, LOC106402754

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

Whirly

Protein Properties

Length: 239aa MW: 26120.9 Da PI: 10.1007

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00103176001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	204.8	1.1e-63	58	196	1	139
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkv 90 +++k++aal+v++v+ptf++++ gnl+++r+G++++++++a++erkydWekkq fals+tev++++++++++s+effhdp++k+sn+G+v GSBRNA2T00103176001 58 AIFKGRAALSVEPVLPTFTKIEPGNLRIDRRGSVMMTFMPAVSERKYDWEKKQLFALSPTEVGSVISMGPQDSSEFFHDPSMKSSNAGQV 147 59************************************************************************************** PP Whirly 91 rkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 rk+l+++Pl+d +G+f++lsvt +++++n++++vPvskaefavl+s+++ GSBRNA2T00103176001 148 RKSLSIKPLADSTGYFFQLSVTDNIQNSNDRIVVPVSKAEFAVLKSAFS 196 ********************************************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	2.2E-72	47	210	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	1.41E-64	50	212	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	4.2E-60	59	194	IPR013742	Plant transcription factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006281	Biological Process	DNA repair
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005739	Cellular Component	mitochondrion
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 239 aa Download sequence Send to blast
MMKQARTLLS RSLCNQSNSL FEGSSRSLAF RGFATWVDSS TTKRADAKPS GRVFAPYAIF 60 KGRAALSVEP VLPTFTKIEP GNLRIDRRGS VMMTFMPAVS ERKYDWEKKQ LFALSPTEVG 120 SVISMGPQDS SEFFHDPSMK SSNAGQVRKS LSIKPLADST GYFFQLSVTD NIQNSNDRIV 180 VPVSKAEFAV LKSAFSFALP HILGWDRITG GDVGIAAQGI ASLPKADPMQ LELEWGKE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4kop_A	3e-96	47	210	5	168	Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B	3e-96	47	210	5	168	Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C	3e-96	47	210	5	168	Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D	3e-96	47	210	5	168	Single-stranded DNA-binding protein WHY2, mitochondrial
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.1515	0.0	flower\| seed

Functional Description ? help Back to Top
Source	Description
UniProt	Single-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
Source	Link
PlantRegMap	GSBRNA2T00103176001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013698994.1	1e-176	single-stranded DNA-binding protein WHY2, mitochondrial isoform X2
Swissprot	Q8VYF7	1e-117	WHY2_ARATH; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBL	A0A0D3CZT6	1e-169	A0A0D3CZT6_BRAOL; Uncharacterized protein
STRING	Bo6g112840.1	1e-169	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12358	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G71260.1	1e-119	WHIRLY 2

Link Out ? help Back to Top
Entrez Gene	106402754

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]