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 | Csa04g008230.1 | ||||||||
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; Camelina
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Family | Whirly | ||||||||
Protein Properties | Length: 270aa MW: 29784.8 Da PI: 9.9751 | ||||||||
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 | 214.1 | 1.4e-66 | 91 | 230 | 1 | 139 |
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpa.akgsneGkvrkal 94 s+yk+kaal++++++p+f+al+sg++kl+++G+lll++a+a+++r+ydW++kq+f+ls+te+++lv+l+++esceffhdp kgs+eGkvrk+l Csa04g008230.1 91 SIYKGKAALTIEPRAPEFVALESGAFKLTKEGFLLLQFAPAAGVRQYDWSRKQVFSLSVTEIGNLVSLGPRESCEFFHDPYkGKGSDEGKVRKVL 185 7*******************************************************************************945679********* PP Whirly 95 kvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 kvePlpdGsG f+nlsv+n l++++e++++P++kaefavl+s+++ Csa04g008230.1 186 KVEPLPDGSGRFFNLSVQNRLLNVDENVYIPITKAEFAVLISAFN 230 ******************************************996 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 | 5.2E-77 | 79 | 252 | IPR009044 | ssDNA-binding transcriptional regulator |
SuperFamily | SSF54447 | 8.63E-80 | 83 | 269 | IPR009044 | ssDNA-binding transcriptional regulator |
Pfam | PF08536 | 4.2E-58 | 92 | 227 | IPR013742 | Plant transcription factor |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0045910 | Biological Process | negative regulation of DNA recombination | ||||
GO:0009570 | Cellular Component | chloroplast stroma | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003723 | Molecular Function | RNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 270 aa Download sequence Send to blast |
MSQLLSSPLM AVFSKTHQFT DARFLSSHST LTSGGFAGKI GPLKKPAARL KLTVKSRQDD 60 YFEKQRFGDV SSSSSPQTTE GSSPRFYVGH SIYKGKAALT IEPRAPEFVA LESGAFKLTK 120 EGFLLLQFAP AAGVRQYDWS RKQVFSLSVT EIGNLVSLGP RESCEFFHDP YKGKGSDEGK 180 VRKVLKVEPL PDGSGRFFNL SVQNRLLNVD ENVYIPITKA EFAVLISAFN FILPHLIGWN 240 AFASSIKPED SNRLNNASPK YGGDYEWSR* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4koq_A | 1e-114 | 78 | 247 | 1 | 169 | Single-stranded DNA-binding protein WHY3, chloroplastic |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Single-stranded DNA-binding protein that functions in both chloroplasts and nucleus. In chloroplasts, maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. In the nucleus, is recruited to a distal element upstream of the kinesin KP1 to mediate the transcriptional repression of KP1. Can bind double-stranded DNA in vivo. {ECO:0000269|PubMed:19666500, ECO:0000269|PubMed:19669906, ECO:0000269|PubMed:20551348, ECO:0000269|PubMed:21911368}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Csa04g008230.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By salicylic acid (SA). {ECO:0000269|PubMed:19669906}. |
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 | BT015336 | 0.0 | BT015336.1 Arabidopsis thaliana At2g02740 gene, complete cds. | |||
GenBank | BT015641 | 0.0 | BT015641.1 Arabidopsis thaliana At2g02740 gene, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_010502280.1 | 0.0 | PREDICTED: single-stranded DNA-binding protein WHY3, chloroplastic | ||||
Swissprot | Q66GR6 | 1e-178 | WHY3_ARATH; Single-stranded DNA-binding protein WHY3, chloroplastic | ||||
TrEMBL | R0H5N7 | 1e-178 | R0H5N7_9BRAS; Uncharacterized protein | ||||
STRING | XP_010502280.1 | 0.0 | (Camelina sativa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM5023 | 27 | 52 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G02740.1 | 1e-174 | ssDNA-binding transcriptional regulator |
Publications ? help Back to Top | |||
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