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 | Itr_sc000862.1_g00006.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
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Family | NF-YC | ||||||||
Protein Properties | Length: 142aa MW: 14844.1 Da PI: 10.6676 | ||||||||
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 | 24.3 | 6.6e-08 | 31 | 105 | 19 | 93 |
NF-YC 19 helPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflv 93 ++P+ ri + lka + +++ aeaPv l+ e++ e+ + + a++nk++ + +i+ av + + l+ Itr_sc000862.1_g00006.1 31 LQFPVGRIARFLKAGKYAERVGAEAPVYLAVVLEYLAAEVLELAGNAARDNKKNRIVPRQIQLAVRNDEELSKLL 105 589*************************************999*********************99887665444 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00414 | 8.7E-72 | 10 | 130 | IPR002119 | Histone H2A |
Gene3D | G3DSA:1.10.20.10 | 2.1E-59 | 14 | 129 | IPR009072 | Histone-fold |
Pfam | PF00125 | 1.2E-13 | 18 | 96 | IPR007125 | Histone H2A/H2B/H3 |
CDD | cd00074 | 4.75E-64 | 20 | 127 | No hit | No description |
PRINTS | PR00620 | 4.7E-49 | 21 | 43 | IPR002119 | Histone H2A |
SuperFamily | SSF47113 | 3.29E-41 | 24 | 127 | IPR009072 | Histone-fold |
PRINTS | PR00620 | 4.7E-49 | 50 | 65 | IPR002119 | Histone H2A |
PRINTS | PR00620 | 4.7E-49 | 65 | 78 | IPR002119 | Histone H2A |
PRINTS | PR00620 | 4.7E-49 | 79 | 93 | IPR002119 | Histone H2A |
Pfam | PF16211 | 8.0E-19 | 99 | 132 | IPR032454 | Histone H2A, C-terminal domain |
PRINTS | PR00620 | 4.7E-49 | 107 | 125 | 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: 142 aa Download sequence Send to blast |
MSSGGGAGKG GAGRGKAKAT KSVSRSSKVG LQFPVGRIAR FLKAGKYAER VGAEAPVYLA 60 VVLEYLAAEV LELAGNAARD NKKNRIVPRQ IQLAVRNDEE LSKLLGDVTI ANGGVLPNIH 120 QTLLPKKAGS GKGEIDFASQ EF |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1eqz_A | 4e-57 | 7 | 134 | 2 | 127 | PROTEIN (HISTONE H2A) |
1eqz_E | 4e-57 | 7 | 134 | 2 | 127 | PROTEIN (HISTONE H2A) |
1hq3_A | 4e-57 | 7 | 134 | 2 | 127 | HISTONE H2A-IV |
1hq3_E | 4e-57 | 7 | 134 | 2 | 127 | HISTONE H2A-IV |
1tzy_A | 4e-57 | 7 | 134 | 2 | 127 | Histone H2A-IV |
1tzy_E | 4e-57 | 7 | 134 | 2 | 127 | Histone H2A-IV |
2aro_A | 4e-57 | 7 | 134 | 2 | 127 | Histone H2A-IV |
2aro_E | 4e-57 | 7 | 134 | 2 | 127 | Histone H2A-IV |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Variant histone H2A which replaces conventional H2A in a subset of nucleosomes. 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. Required for checkpoint-mediated arrest of cell cycle progression in response to low doses of ionizing radiation and for efficient repair of DNA double strand breaks (DSBs) specifically when modified by C-terminal phosphorylation (By similarity). {ECO:0000250}. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_020204559.1 | 6e-81 | histone H2AX | ||||
Refseq | XP_028226627.1 | 6e-81 | histone H2AX-like | ||||
Swissprot | Q9S9K7 | 1e-80 | H2AXB_ARATH; Probable histone H2AXb | ||||
TrEMBL | A0A151R597 | 1e-79 | A0A151R597_CAJCA; Histone H2A | ||||
TrEMBL | A0A445LGF9 | 3e-79 | A0A445LGF9_GLYSO; Histone H2A (Fragment) | ||||
STRING | XP_008451417.1 | 2e-79 | (Cucumis melo) | ||||
STRING | XP_004148883.1 | 2e-79 | (Cucumis sativus) | ||||
STRING | XP_004171385.1 | 2e-79 | (Cucumis sativus) | ||||
STRING | GLYMA19G42760.1 | 1e-79 | (Glycine max) | ||||
STRING | XP_007147093.1 | 1e-79 | (Phaseolus vulgaris) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA164 | 6 | 9 |