PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Ahy020435

Organism

Arachis hypogaea

Taxonomic ID

3818

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis

Family

C2H2

Protein Properties

Length: 291aa MW: 33573.9 Da PI: 10.7765

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Ahy#S59549121	PU_ref	Unigene	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.9	7.9e-05	176	201	1	23
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ++C C++sF +k +L++H r+ + Ahy020435 176 FQCDidGCTMSFGSKQELMHHKRNiC 201 89********************9877 PP
2	zf-C2H2	15.6	4.7e-05	201	223	3	23
ET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirtH 23 Cp Cgk F ++ +L++H r+H Ahy020435 201 CPvkGCGKKFFSHKYLVQHRRVH 223 9999*****************99 PP
3	zf-C2H2	14.5	0.0001	259	285	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C Cg++F+ s++ rH r+ H Ahy020435 259 YVCAepGCGQTFRFVSDFSRHKRKtgH 285 899999*****************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.9E-5	168	198	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	9.1	176	198	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	8.22E-7	199	236	No hit	No description
PROSITE profile	PS50157	12.508	199	228	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0045	199	223	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.1E-6	200	227	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	201	223	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	4.8E-9	228	253	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.741	229	258	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0014	229	253	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	231	253	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.92E-10	239	283	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.0E-10	254	282	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.261	259	290	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.62	259	285	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	261	285	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 291 aa Download sequence Send to blast
XQKQRSSIPR NRQNSNSHLV HKTPKRKQAK CVDDDDGDDD DVNSDDEVED DSQQKQQRTL 60 RSKQSKPMTL KQMKQARSLQ MKNQTSRPVK RGAQTLKKLK ASQMRNKQSG KSREFSLKME 120 EGEEGGPSTR LRKRAPKVEE SDGISKEKQT KKKRVKNATS AKAASNAKVK DEENEFQCDI 180 DGCTMSFGSK QELMHHKRNI CPVKGCGKKF FSHKYLVQHR RVHEDDRPLK CPWKGCKMTF 240 KWAWARTEHI RVHTGARPYV CAEPGCGQTF RFVSDFSRHK RKTGHSTKKS R

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6a57_A	6e-75	176	290	23	137	Lysine-specific demethylase REF6
6a58_A	6e-75	176	290	23	137	Lysine-specific demethylase REF6
6a59_A	6e-75	176	290	23	137	Lysine-specific demethylase REF6
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	131	153	RKRAPKVEESDGISKEKQTKKKR

Functional Description ? help Back to Top
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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025641532.1	0.0	lysine-specific demethylase REF6 isoform X2
Refseq	XP_025641533.1	0.0	lysine-specific demethylase REF6 isoform X3
Swissprot	Q9STM3	1e-74	REF6_ARATH; Lysine-specific demethylase REF6
TrEMBL	A0A445AAH6	0.0	A0A445AAH6_ARAHY; Uncharacterized protein
STRING	GLYMA04G36620.1	1e-135	(Glycine max)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48430.1	4e-72	relative of early flowering 6

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]