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 | Sopen05g010000.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
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Family | NF-YC | ||||||||
Protein Properties | Length: 135aa MW: 14837.4 Da PI: 11.1964 | ||||||||
Description | NF-YC 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 | NF-YC | 28.2 | 4.2e-09 | 23 | 102 | 19 | 97 |
NF-YC 19 helPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavt.rtdifdflvdivp 97 ++P+ari + lk+ + k++ a aPv+l+ e++ +e+ + + ++ k++ + i+ a+ + ++fl d+ + Sopen05g010000.1 23 LKFPVARIARFLKVGKYAKRVGAGAPVFLAVVLEYLAVEVLELAGIAVRNDKKTRTTQRHIQLAIRfDKELYQFLRDVTI 102 689************************************87666666555554444445677776526789******865 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00414 | 7.5E-53 | 2 | 122 | IPR002119 | Histone H2A |
Gene3D | G3DSA:1.10.20.10 | 1.8E-46 | 6 | 120 | IPR009072 | Histone-fold |
CDD | cd00074 | 7.98E-51 | 11 | 117 | No hit | No description |
Pfam | PF00125 | 1.7E-12 | 13 | 89 | IPR007125 | Histone H2A/H2B/H3 |
PRINTS | PR00620 | 1.1E-40 | 13 | 35 | IPR002119 | Histone H2A |
SuperFamily | SSF47113 | 2.1E-34 | 14 | 117 | IPR009072 | Histone-fold |
PROSITE pattern | PS00046 | 0 | 21 | 27 | IPR032458 | Histone H2A conserved site |
PRINTS | PR00620 | 1.1E-40 | 42 | 57 | IPR002119 | Histone H2A |
PRINTS | PR00620 | 1.1E-40 | 57 | 70 | IPR002119 | Histone H2A |
PRINTS | PR00620 | 1.1E-40 | 71 | 85 | IPR002119 | Histone H2A |
Pfam | PF16211 | 5.0E-14 | 92 | 125 | IPR032454 | Histone H2A, C-terminal domain |
PRINTS | PR00620 | 1.1E-40 | 99 | 117 | IPR002119 | Histone H2A |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0000786 | Cellular Component | nucleosome | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0046982 | Molecular Function | protein heterodimerization activity |
Sequence ? help Back to Top |
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Protein Sequence Length: 135 aa Download sequence Send to blast |
MAGKGKNVGS NAKRRSRSSK AGLKFPVARI ARFLKVGKYA KRVGAGAPVF LAVVLEYLAV 60 EVLELAGIAV RNDKKTRTTQ RHIQLAIRFD KELYQFLRDV TIPNGGVIPK IHKILLPNNK 120 SNTSKAVVAA QEEED |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1eqz_A | 5e-45 | 1 | 126 | 1 | 126 | PROTEIN (HISTONE H2A) |
1eqz_E | 5e-45 | 1 | 126 | 1 | 126 | PROTEIN (HISTONE H2A) |
1hq3_A | 5e-45 | 1 | 126 | 1 | 126 | HISTONE H2A-IV |
1hq3_E | 5e-45 | 1 | 126 | 1 | 126 | HISTONE H2A-IV |
1tzy_A | 5e-45 | 1 | 126 | 1 | 126 | Histone H2A-IV |
1tzy_E | 5e-45 | 1 | 126 | 1 | 126 | Histone H2A-IV |
2aro_A | 5e-45 | 1 | 126 | 1 | 126 | Histone H2A-IV |
2aro_E | 5e-45 | 1 | 126 | 1 | 126 | Histone H2A-IV |
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Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. |
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 | HG975444 | 1e-123 | HG975444.1 Solanum pennellii chromosome ch05, complete genome. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015075863.1 | 3e-93 | probable histone H2A.3 | ||||
Swissprot | O81826 | 1e-54 | H2A3_ARATH; Probable histone H2A.3 | ||||
TrEMBL | K4BYJ8 | 6e-83 | K4BYJ8_SOLLC; Histone H2A | ||||
STRING | Solyc05g014800.1.1 | 1e-83 | (Solanum lycopersicum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA164 | 6 | 9 |
Publications ? help Back to Top | |||
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