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

Solyc11g044750.1.1

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

Whirly

Protein Properties

Length: 237aa MW: 26449.1 Da PI: 10.6532

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc11g044750.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	202.3	6.1e-63	60	198	1	139
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvr 91 sv+k+kaal+ ++++ptf+ ldsg +kl+r+G ++l++ ++++erkydWek+q falsatev++l+++++++s+effhdp++ +sn+G+vr Solyc11g044750.1.1 60 SVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDWEKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVR 150 79*************************************************************************************** PP Whirly 92 kalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 k+l+++P +dGsG+fv+lsv n+ +k+n++f+vPv+ aefav+r++++ Solyc11g044750.1.1 151 KSLSIKPNADGSGYFVSLSVVNNNLKTNDRFTVPVTTAEFAVMRTAFS 198 *******************************************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	1.3E-75	47	217	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	1.33E-64	53	231	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	2.5E-59	61	195	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: 237 aa Download sequence Send to blast
MMFFSRHIRN QLLHKKLSGE DVKGSIWQNA INTFAAFSTV RQDVVADAGK REGRVFAPYS 60 VFKGKAALSA EPRLPTFNRL DSGGVKLNRR GVIMLTFWPS VGERKYDWEK RQLFALSATE 120 VGSLISMGTR DSSEFFHDPS MLSSNAGQVR KSLSIKPNAD GSGYFVSLSV VNNNLKTNDR 180 FTVPVTTAEF AVMRTAFSFA LPHIMGWDRF TNRPSESISQ SPSKVVPQLM EAEWDR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3n1h_A	1e-123	45	216	1	172	StWhy2
3n1i_A	1e-123	45	216	1	172	protein StWhy2
3n1j_A	1e-123	45	216	1	172	Protein StWhy2
3n1k_A	1e-123	45	216	1	172	protein StWhy2
3n1l_A	1e-123	45	216	1	172	protein StWhy2
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.11525	0.0	callus\| flower\| fruit\| trichome

Functional Description ? help Back to Top
Source	Description
UniProt	Single-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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc11g044750.1.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC242511	8e-08	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-17i17 map 1, complete sequence
GenBank	AC242825	8e-08	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone sle-12f19 map 1, complete sequence
GenBank	AC245808	8e-08	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone sle-12c9 map 1, complete sequence
GenBank	AC246652	8e-08	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone slm-43g4 map 1, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010313085.1	1e-171	mtDNA-binding protein WHIRLY2-like isoform X1
Swissprot	D9J034	1e-165	WHY2_SOLTU; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBL	A0A3Q7JMC9	1e-167	A0A3Q7JMC9_SOLLC; Uncharacterized protein
STRING	Solyc11g044750.1.1	1e-174	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA9782	22	28
Representative plant	OGRP2316	16	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G71260.1	4e-96	WHIRLY 2

Link Out ? help Back to Top
Phytozome	Solyc11g044750.1.1

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505]