PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Migut.I00266.1.p
Common NameMIMGU_mgv1a000334mg
Organism
Mimulus guttatus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Phrymaceae; Erythranthe
Family C2H2
Protein Properties Length: 1223aa    MW: 136944 Da    PI: 8.5573
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Migut.I00266.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.20.0002611311153323
                        ET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2    3 Cp..dCgksFsrksnLkrHirtH 23  
                        Cp   Cgk F ++ +L++H r+H
  Migut.I00266.1.p 1131 CPvkGCGKKFFSHKYLVQHRRVH 1153
                        9999*****************99 PP
2zf-C2H212.20.0005411891215123
                        EEET..TTTEEESSHHHHHHHHHH..T CS
           zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                        y+C+   Cg++F+  s++ rH r+  H
  Migut.I00266.1.p 1189 YVCTetGCGQTFRFVSDFSRHKRKtgH 1215
                        99********************99666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005459.9E-162263IPR003349JmjN domain
PROSITE profilePS5118314.6592364IPR003349JmjN domain
PfamPF023751.3E-142457IPR003349JmjN domain
SuperFamilySSF511977.14E-27109166No hitNo description
PROSITE profilePS5118433.03187356IPR003347JmjC domain
SMARTSM005581.9E-50187356IPR003347JmjC domain
SuperFamilySSF511977.14E-27205367No hitNo description
PfamPF023733.0E-37220339IPR003347JmjC domain
SMARTSM003552411061128IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.44511291158IPR007087Zinc finger, C2H2
SMARTSM003550.004511291153IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.5E-611301152IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028011311153IPR007087Zinc finger, C2H2
SuperFamilySSF576671.93E-911451187No hitNo description
Gene3DG3DSA:3.30.160.601.9E-911531181IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.67911591188IPR007087Zinc finger, C2H2
SMARTSM003550.001811591183IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028011611183IPR007087Zinc finger, C2H2
SuperFamilySSF576676.82E-811771212No hitNo description
Gene3DG3DSA:3.30.160.601.0E-811821212IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.57211891220IPR007087Zinc finger, C2H2
SMARTSM003550.1911891215IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028011911215IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0035067Biological Processnegative regulation of histone acetylation
GO:0040010Biological Processpositive regulation of growth rate
GO:0045815Biological Processpositive regulation of gene expression, epigenetic
GO:0048366Biological Processleaf development
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
GO:0071558Molecular Functionhistone demethylase activity (H3-K27 specific)
Sequence ? help Back to Top
Protein Sequence    Length: 1223 aa     Download sequence    Send to blast
MAAEVGGGGS IEVSPWLKSM PVAPEYHPTL AEFQDPIAYI FKIEKEASKY GICKIVPPVP  60
AAPRKTIVAN LNKSLLARSN NPDPGPTFTT RQQQIGFCPR KHRPVQKPVW QSGEKYTLAE  120
FETKAKNFEK NYLKKYSKKI LNPLEIETLY WNAMVDKPFQ VEYANDMPGS AFVPQKSGVK  180
KNESALTVGD TEWNMRRVSR ENLSLLRFMK EEIPGVTSPM VYVAMMFSWF AWHVEDHDLH  240
SMNFLHMGAG KTWYGVPREA AVAFEEVIRE HGYSGEINPL VTFATLGEKT TVMPPEVLLS  300
AGVPCCRLVQ NAGEFVVTFP RAYHSGFSHG FNCGEAANIA TPEWLRVARE AAIRRAAINC  360
PPMVSHFQLL YDLALSLCSR APKSIAAEPR SSRLKDRKKG EGEMLIKELF FQDMMQNNDM  420
LHILGKRSPI VLLSKNSLDS PSGSHSAAKS RLFPSLCSPD LEMKTTSNNN NAPDELICMK  480
QTKGHFRNSE EVPCMDREIK KACQKSEQGL FSCVTCGILC FACVAIVQPT EASARYIMSG  540
DCSIFNFWET SDNEHNDIKD AKAPNAKLSS SALMIGKTHS GRVFDAPLSV EKENSVGVVS  600
EKANKAPSSL GLLALTYANS SDSEEEDENE ADISFQGGGN CKIDSPENDT DLRMSDSNTK  660
FGLPIETHGN GESRNLTNNC NVAESKNSLT DRFRRQMESW NETSNSLTRK TEANNGSTPL  720
AESTMPFSSR SDEDSSRLHV FCLQHAMQVE KRLGEVGGAH VFLICHPDYP KLESQARKIA  780
EELENDSPWN EISFQDATEA DEEIIRLSLE SENSIHGNRD WAVKLGINLF YSANLSRSPL  840
YCKQMHYNSV IYGAFGRSSE IDDTSSIKAE IEGKSLGFGR HKKIFVAGKW CGKVWMSSHA  900
HPLLVDHDFL QEPDFKNERQ SSQRKRKSSV AENSAETTTK MDESSLDFVL RNCRKQIKRK  960
RGSRRMKEEN HEPEISDDSS EECRTKQLKK ETAVNLDDDS SDEFPLSSSW KQIKNKRGAN  1020
QEPVKSQPKT KKQIDEPEGG PSTRLRKRTK TLICKETGPS KAKPAPKKQQ NDAVIPAKAA  1080
KAKSPAAIKN PAKAKNQNRG DEEAEYLCDM EGCAMSFASK NELTLHKRNI CPVKGCGKKF  1140
FSHKYLVQHR RVHMDDRPLK CPWKGCKMTF KWAWARTEHV RVHTGARPYV CTETGCGQTF  1200
RFVSDFSRHK RKTGHTPKKA RG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A3e-74163778353Transcription factor jumonji (Jmj) family protein
6ip4_A3e-74163778353Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1922927QRKRKS
Functional Description ? help Back to Top
Source Description
UniProtHistone 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00608ChIP-seqTransfer from AT3G48430Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapMigut.I00266.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012834201.10.0PREDICTED: lysine-specific demethylase REF6
SwissprotQ9STM30.0REF6_ARATH; Lysine-specific demethylase REF6
TrEMBLA0A022RIV60.0A0A022RIV6_ERYGU; Uncharacterized protein
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA49882331
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48430.10.0relative of early flowering 6
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. Qiu Q, et al.
    DNA methylation repels targeting of Arabidopsis REF6.
    Nat Commun, 2019. 10(1): p. 2063
    [PMID:31048693]