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 | Pavir.4NG050500.1.p | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
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Family | Whirly | ||||||||
Protein Properties | Length: 268aa MW: 29603.8 Da PI: 9.771 | ||||||||
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 | 198.5 | 9.2e-62 | 92 | 230 | 1 | 139 |
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkv 90 s+yk+kaal +++ p+f+ ldsg+ k+ ++G++ll++a+a+a+r+ydW +kq+f+ls+ e+++l+ l++ +sceffhdp+++ s+eGkv Pavir.4NG050500.1.p 92 SIYKGKAALAFDPRPPQFVPLDSGAYKVAKEGFVLLQFAPAVATRQYDWTRKQVFSLSVWEIGTLLTLGPTDSCEFFHDPFKGRSEEGKV 181 7***************************************************************************************** PP Whirly 91 rkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 rk+lkveP pdG G f+nlsv+n lv+++es+++P++k+efav+ s ++ Pavir.4NG050500.1.p 182 RKVLKVEPTPDGNGRFFNLSVQNRLVNVDESIYIPITKGEFAVIVSTFN 230 ********************************************99875 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 | 3.2E-79 | 80 | 252 | IPR009044 | ssDNA-binding transcriptional regulator |
SuperFamily | SSF54447 | 8.63E-75 | 85 | 267 | IPR009044 | ssDNA-binding transcriptional regulator |
Pfam | PF08536 | 9.2E-59 | 93 | 227 | 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:0032211 | Biological Process | negative regulation of telomere maintenance via telomerase | ||||
GO:0045893 | Biological Process | positive 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:0003697 | Molecular Function | single-stranded DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0003723 | Molecular Function | RNA binding | ||||
GO:0042162 | Molecular Function | telomeric DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 268 aa Download sequence Send to blast |
MPPPAPLFLS LPSPPPPPLL PAHHPRSPQS VSLSVAPPLA SSRRPALPTC PVASPRHSDY 60 FDPRAPPPPR GDGGYGRPPN GAHEGRVFTS YSIYKGKAAL AFDPRPPQFV PLDSGAYKVA 120 KEGFVLLQFA PAVATRQYDW TRKQVFSLSV WEIGTLLTLG PTDSCEFFHD PFKGRSEEGK 180 VRKVLKVEPT PDGNGRFFNL SVQNRLVNVD ESIYIPITKG EFAVIVSTFN YIIPHLMGWS 240 TFTSSIKPEE SRPYSRPQSA PEYEWRR* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1l3a_A | 3e-89 | 56 | 266 | 12 | 219 | p24: plant transcriptional regulator PBF-2 |
1l3a_B | 3e-89 | 56 | 266 | 12 | 219 | p24: plant transcriptional regulator PBF-2 |
1l3a_C | 3e-89 | 56 | 266 | 12 | 219 | p24: plant transcriptional regulator PBF-2 |
1l3a_D | 3e-89 | 56 | 266 | 12 | 219 | p24: plant transcriptional regulator PBF-2 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Pvr.39804 | 0.0 | leaf |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Single-stranded DNA and RNA binding protein that maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. Functions in RNA metabolism and is involved in the maturation of the atpF and 23S ribosomal RNAs. {ECO:0000269|PubMed:18676978, ECO:0000269|PubMed:19666500}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Pavir.4NG050500.1.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 | BT043360 | 0.0 | BT043360.1 Zea mays full-length cDNA clone ZM_BFc0169P08 mRNA, complete cds. | |||
GenBank | EU595664 | 0.0 | EU595664.1 Zea mays Whirly family nucleic acid binding protein (WHY1) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025810386.1 | 1e-174 | single-stranded DNA-binding protein WHY1, chloroplastic | ||||
Swissprot | B2LXS7 | 1e-170 | WHY1_MAIZE; Single-stranded DNA-binding protein WHY1, chloroplastic | ||||
TrEMBL | A0A2T7E310 | 1e-173 | A0A2T7E310_9POAL; Uncharacterized protein | ||||
STRING | Pavir.Db02235.1.p | 1e-178 | (Panicum virgatum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP3012 | 38 | 85 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G02740.2 | 2e-95 | ssDNA-binding transcriptional regulator |
Link Out ? help Back to Top | |
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Phytozome | Pavir.4NG050500.1.p |
Publications ? help Back to Top | |||
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