PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Cagra.0147s0016.1.p | ||||||||
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; Capsella
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Family | Whirly | ||||||||
Protein Properties | Length: 236aa MW: 25778.1 Da PI: 9.0321 | ||||||||
Description | Whirly family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | Whirly | 221.7 | 6.3e-69 | 57 | 195 | 1 | 139 |
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkv 90 +++k+kaal+v++v+ptf+++dsgnl+l+r+G+l++++++a +erkydWekkq+fals+tev++l++++sk+s+effhdp++k+sn+G+v Cagra.0147s0016.1.p 57 AIFKGKAALSVEPVLPTFTEIDSGNLRLDRRGSLMMTFMPASGERKYDWEKKQKFALSPTEVGSLISMGSKDSSEFFHDPSMKSSNAGQV 146 59**************************************************************************************** PP Whirly 91 rkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 rk+l++eP++dGsG+f++l v ns++k+n++++vPv+ aef+v++++++ Cagra.0147s0016.1.p 147 RKSLSIEPHADGSGYFISLGVINSILKTNDRIVVPVTTAEFTVMKTAFS 195 **********************************************995 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:2.30.31.10 | 2.3E-74 | 45 | 211 | IPR009044 | ssDNA-binding transcriptional regulator |
SuperFamily | SSF54447 | 2.12E-68 | 49 | 219 | IPR009044 | ssDNA-binding transcriptional regulator |
Pfam | PF08536 | 1.1E-59 | 58 | 192 | IPR013742 | Plant transcription factor |
Gene Ontology ? help Back to Top | ||||||
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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 |
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Protein Sequence Length: 236 aa Download sequence Send to blast |
MMKQARTLLS RSLCDQSKSL FDGASTLRGF ASWSTGGGFS GKEEAAKPSG RVFAPYAIFK 60 GKAALSVEPV LPTFTEIDSG NLRLDRRGSL MMTFMPASGE RKYDWEKKQK FALSPTEVGS 120 LISMGSKDSS EFFHDPSMKS SNAGQVRKSL SIEPHADGSG YFISLGVINS ILKTNDRIVV 180 PVTTAEFTVM KTAFSFVLPH LMGWDRLTDQ DGTGTQRTTS HGNTDPQQLE QEWDK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4kop_A | 1e-108 | 43 | 208 | 2 | 167 | Single-stranded DNA-binding protein WHY2, mitochondrial |
4kop_B | 1e-108 | 43 | 208 | 2 | 167 | Single-stranded DNA-binding protein WHY2, mitochondrial |
4kop_C | 1e-108 | 43 | 208 | 2 | 167 | Single-stranded DNA-binding protein WHY2, mitochondrial |
4kop_D | 1e-108 | 43 | 208 | 2 | 167 | Single-stranded DNA-binding protein WHY2, mitochondrial |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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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 | |
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Source | Link |
PlantRegMap | Cagra.0147s0016.1.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AB493532 | 0.0 | AB493532.1 Arabidopsis thaliana At1g71260 mRNA for hypothetical protein, partial cds, clone: RAAt1g71260. | |||
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 | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006302759.1 | 1e-173 | single-stranded DNA-binding protein WHY2, mitochondrial isoform X1 | ||||
Swissprot | Q8VYF7 | 1e-136 | WHY2_ARATH; Single-stranded DNA-binding protein WHY2, mitochondrial | ||||
TrEMBL | R0GIE3 | 1e-171 | R0GIE3_9BRAS; Uncharacterized protein | ||||
STRING | Cagra.0147s0016.1.p | 1e-174 | (Capsella grandiflora) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM12358 | 27 | 31 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G71260.1 | 1e-135 | WHIRLY 2 |
Link Out ? help Back to Top | |
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Phytozome | Cagra.0147s0016.1.p |