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Plant Transcription
Factor Database
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Transcription Factor Information
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Basic
Information? help
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| TF ID |
DCAR_023885 |
| Organism |
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| Taxonomic ID |
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| Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Apiales; Apiineae; Apiaceae; Apioideae; Scandiceae; Daucinae; Daucus
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| Family |
C2H2 |
| Protein Properties |
Length: 105aa MW: 12149.9 Da PI: 10.4381 |
| Description |
C2H2 family protein |
| Gene Model |
| Gene Model ID |
Type |
Source |
Coding Sequence |
| DCAR_023885 | genome | ARS-USDA | View CDS |
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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 | zf-C2H2 | 17.2 | 1.4e-05 | 18 | 40 | 3 | 23 |
ET..TTTEEESSHHHHHHHHHHT CS
zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23
C+ Cgk F ++ +L +H+++H
DCAR_023885 18 CSvkGCGKKFASHKYLIHHQKVH 40
77779****************99 PP
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| 2 | zf-C2H2 | 12.6 | 0.00041 | 47 | 70 | 2 | 23 |
EET..TTTEEESSHHHHHHHHHHT CS
zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23
+C+ C+k+F+ + Hir+H
DCAR_023885 47 QCTweGCTKTFKWAWARTEHIRVH 70
79999*****************99 PP
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| 3 | zf-C2H2 | 16.2 | 3.1e-05 | 76 | 102 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH..T CS
zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23
y+C C+k+F+ s++ rH r+ H
DCAR_023885 76 YTCAetGCSKTFRFVSDFSRHRRKtgH 102
99*********************9777 PP
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| 3D Structure ? help Back to Top |
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| PDB ID |
Evalue |
Query Start |
Query End |
Hit Start |
Hit End |
Description |
| 6a57_A | 2e-53 | 2 | 103 | 32 | 133 | Lysine-specific demethylase REF6 |
| 6a58_A | 2e-53 | 2 | 103 | 32 | 133 | Lysine-specific demethylase REF6 |
| 6a59_A | 2e-53 | 2 | 103 | 32 | 133 | Lysine-specific demethylase REF6 |
| Search in ModeBase |
| Functional Description ? help
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| Source |
Description |
| UniProt | Histone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3. Demethylates both tri- (H3K27me3) and di-methylated (H3K27me2) H3K27me (PubMed:21642989, PubMed:27111035). Demethylates also H3K4me3/2 and H3K36me3/2 in an in vitro assay (PubMed:20711170). Involved in the transcriptional regulation of hundreds of genes regulating developmental patterning and responses to various stimuli (PubMed:18467490). Binds DNA via its four zinc fingers in a sequence-specific manner, 5'-CTCTGYTY-3', to promote the demethylation of H3K27me3 and the regulation of organ boundary formation (PubMed:27111034, PubMed:27111035). Involved in the regulation of flowering time by repressing FLOWERING LOCUS C (FLC) expression (PubMed:15377760). Interacts with the NF-Y complexe to regulate SOC1 (PubMed:25105952). Mediates the recruitment of BRM to its target loci (PubMed:27111034). {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:20711170, ECO:0000269|PubMed:21642989, ECO:0000269|PubMed:25105952, ECO:0000269|PubMed:27111034, ECO:0000269|PubMed:27111035}. |
| Publications
? help Back to Top |
- Li C, et al.
Concerted genomic targeting of H3K27 demethylase REF6 and chromatin-remodeling ATPase BRM in Arabidopsis.
Nat. Genet., 2016. 48(6): p. 687-93
[PMID:27111034] - Cui X, et al.
REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis.
Nat. Genet., 2016. 48(6): p. 694-9
[PMID:27111035] - Hyun Y, et al.
Multi-layered Regulation of SPL15 and Cooperation with SOC1 Integrate Endogenous Flowering Pathways at the Arabidopsis Shoot Meristem.
Dev. Cell, 2016. 37(3): p. 254-66
[PMID:27134142] - Cheng JZ,Zhou YP,Lv TX,Xie CP,Tian CE
Research progress on the autonomous flowering time pathway in Arabidopsis.
Physiol Mol Biol Plants, 2017. 23(3): p. 477-485
[PMID:28878488] - Li C, et al.
Verification of DNA motifs in Arabidopsis using CRISPR/Cas9-mediated mutagenesis.
Plant Biotechnol. J., 2018. 16(8): p. 1446-1451
[PMID:29331085] - Wang X, et al.
The H3K27me3 demethylase REF6 promotes leaf senescence through directly activating major senescence regulatory and functional genes in Arabidopsis.
PLoS Genet., 2019. 15(4): p. e1008068
[PMID:30969965] - Qiu Q, et al.
DNA methylation repels targeting of Arabidopsis REF6.
Nat Commun, 2019. 10(1): p. 2063
[PMID:31048693]
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