PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | AT1G71260.1 | ||||||||
Common Name | ATWHY2, F3I17.9, WHY2 | ||||||||
Organism | |||||||||
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: 238aa MW: 26295.1 Da PI: 10.2945 | ||||||||
Description | WHIRLY 2 | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | Whirly | 234.4 | 7.6e-73 | 59 | 197 | 1 | 139 |
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkveP 98 s++k+kaal+v++v+p+f+++dsgnl+++r+G+l++++++a++erkydWekkq+fals+tev++l++++sk+s+effhdp++k+sn+G+vrk+l+v+P AT1G71260.1 59 SIFKGKAALSVEPVLPSFTEIDSGNLRIDRRGSLMMTFMPAIGERKYDWEKKQKFALSPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQVRKSLSVKP 156 79************************************************************************************************ PP Whirly 99 lpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 ++dGsG+f++lsv+ns++k+n++f+vPv+kaefav++++++ AT1G71260.1 157 HADGSGYFISLSVNNSILKTNDYFVVPVTKAEFAVMKTAFS 197 **************************************995 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:2.30.31.10 | 1.9E-75 | 48 | 215 | IPR009044 | ssDNA-binding transcriptional regulator |
SuperFamily | SSF54447 | 2.28E-77 | 51 | 238 | IPR009044 | ssDNA-binding transcriptional regulator |
Pfam | PF08536 | 6.5E-61 | 60 | 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:0006952 | Biological Process | defense response | ||||
GO:0005739 | Cellular Component | mitochondrion | ||||
GO:0003677 | Molecular Function | DNA binding |
Plant Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PO Term | PO Category | PO Description | ||||
PO:0000013 | anatomy | cauline leaf | ||||
PO:0000037 | anatomy | shoot apex | ||||
PO:0000230 | anatomy | inflorescence meristem | ||||
PO:0000293 | anatomy | guard cell | ||||
PO:0008019 | anatomy | leaf lamina base | ||||
PO:0009005 | anatomy | root | ||||
PO:0009006 | anatomy | shoot system | ||||
PO:0009009 | anatomy | plant embryo | ||||
PO:0009010 | anatomy | seed | ||||
PO:0009025 | anatomy | vascular leaf | ||||
PO:0009029 | anatomy | stamen | ||||
PO:0009030 | anatomy | carpel | ||||
PO:0009031 | anatomy | sepal | ||||
PO:0009032 | anatomy | petal | ||||
PO:0009046 | anatomy | flower | ||||
PO:0009047 | anatomy | stem | ||||
PO:0009052 | anatomy | flower pedicel | ||||
PO:0020030 | anatomy | cotyledon | ||||
PO:0020038 | anatomy | petiole | ||||
PO:0020100 | anatomy | hypocotyl | ||||
PO:0020137 | anatomy | leaf apex | ||||
PO:0025022 | anatomy | collective leaf structure | ||||
PO:0025281 | anatomy | pollen | ||||
PO:0001054 | developmental stage | vascular leaf senescent stage | ||||
PO:0001078 | developmental stage | plant embryo cotyledonary stage | ||||
PO:0001081 | developmental stage | mature plant embryo stage | ||||
PO:0001185 | developmental stage | plant embryo globular stage | ||||
PO:0004507 | developmental stage | plant embryo bilateral stage | ||||
PO:0007057 | developmental stage | seed germination stage | ||||
PO:0007064 | developmental stage | LP.12 twelve leaves visible stage | ||||
PO:0007095 | developmental stage | LP.08 eight leaves visible stage | ||||
PO:0007098 | developmental stage | LP.02 two leaves visible stage | ||||
PO:0007103 | developmental stage | LP.10 ten leaves visible stage | ||||
PO:0007115 | developmental stage | LP.04 four leaves visible stage | ||||
PO:0007123 | developmental stage | LP.06 six leaves visible stage | ||||
PO:0007611 | developmental stage | petal differentiation and expansion stage | ||||
PO:0007616 | developmental stage | flowering stage |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 238 aa Download sequence Send to blast |
MMKQARSLLS RSLCDQSKSL FEASTLRGFA SWSNSSTPGR GFPGKDAAKP SGRLFAPYSI 60 FKGKAALSVE PVLPSFTEID SGNLRIDRRG SLMMTFMPAI GERKYDWEKK QKFALSPTEV 120 GSLISMGSKD SSEFFHDPSM KSSNAGQVRK SLSVKPHADG SGYFISLSVN NSILKTNDYF 180 VVPVTKAEFA VMKTAFSFAL PHIMGWNRLT GHVNTEALPS RNVSHLKTEP QLELEWDK |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4kop_A | 1e-122 | 45 | 213 | 2 | 170 | Single-stranded DNA-binding protein WHY2, mitochondrial |
4kop_B | 1e-122 | 45 | 213 | 2 | 170 | Single-stranded DNA-binding protein WHY2, mitochondrial |
4kop_C | 1e-122 | 45 | 213 | 2 | 170 | Single-stranded DNA-binding protein WHY2, mitochondrial |
4kop_D | 1e-122 | 45 | 213 | 2 | 170 | Single-stranded DNA-binding protein WHY2, mitochondrial |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
---|---|---|---|---|---|---|
UniGene ID | E-value | Expressed in | ||||
At.28009 | 0.0 | flower| root| silique |
Expression -- Microarray ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | ID | E-value | ||||
GEO | 145337407 | 0.0 | ||||
Genevisible | 259942_at | 0.0 | ||||
Expression Atlas | AT1G71260 | - | ||||
AtGenExpress | AT1G71260 | - | ||||
ATTED-II | AT1G71260 | - |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
TAIR | Encodes WHY2, a homolog of the potato p24 protein. It shares the conserved KGKAAL domain, a putative DNA-binding domain, with potato p24 and is localized to mitochondria and not the nucleus. WHY2 is a member of the Whirly family proteins present mainly in the plant kingdom performing various activities related to DNA metabolism. Crystal structure of Solanum tuberosum WHY2, a close homolog of Arabidopsis WHY2, reveal that Whirly proteins bind to single strand DNA to promote accurate repair of DNA double-strand breaks over an error-prone repair pathway. | |||||
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}. |
Function -- GeneRIF ? help Back to Top | ||||||
---|---|---|---|---|---|---|
|
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | AT1G71260.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Phenotype -- Disruption Phenotype ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | DISRUPTION PHENOTYPE: No visible phenotype under normal growth conditions. {ECO:0000269|PubMed:18423020}. |
Phenotype -- Mutation ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | ID | |||||
T-DNA Express | AT1G71260 |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AY072110 | 0.0 | AY072110.1 Arabidopsis thaliana unknown protein (At1g71260) mRNA, complete cds. | |||
GenBank | AY122961 | 0.0 | AY122961.1 Arabidopsis thaliana unknown protein (At1g71260) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | NP_177282.2 | 1e-176 | WHIRLY 2 | ||||
Swissprot | Q8VYF7 | 1e-177 | WHY2_ARATH; Single-stranded DNA-binding protein WHY2, mitochondrial | ||||
TrEMBL | A0A178W9L5 | 1e-173 | A0A178W9L5_ARATH; WHY2 | ||||
STRING | AT1G71260.1 | 1e-176 | (Arabidopsis thaliana) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM12358 | 27 | 31 | Representative plant | OGRP2316 | 16 | 35 |
Link Out ? help Back to Top | |
---|---|
Phytozome | AT1G71260.1 |
Entrez Gene | 843467 |
iHOP | AT1G71260 |
wikigenes | AT1G71260 |