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 | XP_009101242.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
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Family | Whirly | ||||||||
Protein Properties | Length: 261aa MW: 28804.8 Da PI: 10.0853 | ||||||||
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 | 217.4 | 1.4e-67 | 82 | 221 | 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++kesceffhdp kgs+eGkvrk+l XP_009101242.1 82 SIYKGKAALTIEPRAPEFVALESGAFKLSKEGFLLLQFAPAAGVRQYDWSRKQVFSLSVTEIGNLVSLGPKESCEFFHDPNkGKGSDEGKVRKVL 176 7********************************************************************************45679********* PP Whirly 95 kvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 kvePlpdGsG f+nlsv+n+l++++es+++P++kaefavl+s+++ XP_009101242.1 177 KVEPLPDGSGRFFNLSVQNKLLNVDESVYIPITKAEFAVLISAFN 221 ******************************************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 | 5.1E-78 | 70 | 243 | IPR009044 | ssDNA-binding transcriptional regulator |
SuperFamily | SSF54447 | 2.2E-78 | 74 | 261 | IPR009044 | ssDNA-binding transcriptional regulator |
Pfam | PF08536 | 1.5E-58 | 83 | 218 | 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:0045910 | Biological Process | negative regulation of DNA recombination | ||||
GO:0009508 | Cellular Component | plastid chromosome | ||||
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: 261 aa Download sequence Send to blast |
MSQLLSSTPP LAVNSRIFLT HRFPEARFLT AGVFVGKGRG FSVKPTERVK LTVKSRYSDS 60 SSPAYSQQNG EGSSPRFYVG HSIYKGKAAL TIEPRAPEFV ALESGAFKLS KEGFLLLQFA 120 PAAGVRQYDW SRKQVFSLSV TEIGNLVSLG PKESCEFFHD PNKGKGSDEG KVRKVLKVEP 180 LPDGSGRFFN LSVQNKLLNV DESVYIPITK AEFAVLISAF NFILPHLIGW QAFASSIKPE 240 DSNRLNNASS PKYGGDYEWS R |
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-112 | 70 | 238 | 2 | 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 | XP_009101242.1 |
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_009101242.1 | 0.0 | PREDICTED: single-stranded DNA-binding protein WHY3, chloroplastic isoform X1 | ||||
Swissprot | Q66GR6 | 1e-152 | WHY3_ARATH; Single-stranded DNA-binding protein WHY3, chloroplastic | ||||
TrEMBL | M4E7Q3 | 0.0 | M4E7Q3_BRARP; Uncharacterized protein | ||||
STRING | Bra024809.1-P | 0.0 | (Brassica rapa) |
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-150 | ssDNA-binding transcriptional regulator |
Publications ? help Back to Top | |||
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