PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Zosma194g00140.1
Common NameZOSMA_194G00140
Organism
Zostera marina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Zosteraceae; Zostera
Family C2H2
Protein Properties Length: 1099aa    MW: 123300 Da    PI: 8.9509
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Zosma194g00140.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.20.001110631089123
                        EEET..TTTEEESSHHHHHHHHHH..T CS
           zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                        y+C+   C+k+F+  s++ rH r+  H
  Zosma194g00140.1 1063 YVCQepSCSKTFRFVSDFSRHKRKtgH 1089
                        89********************99666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5118437.10527196IPR003347JmjC domain
SMARTSM005583.5E-4627196IPR003347JmjC domain
SuperFamilySSF511973.71E-2741213No hitNo description
PfamPF023735.9E-3760179IPR003347JmjC domain
SMARTSM003551109801002IPR015880Zinc finger, C2H2-like
SMARTSM003552010031027IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.47310031032IPR007087Zinc finger, C2H2
PROSITE patternPS00028010051027IPR007087Zinc finger, C2H2
SuperFamilySSF576679.42E-1310181074No hitNo description
Gene3DG3DSA:3.30.160.605.4E-1010311057IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.59110331062IPR007087Zinc finger, C2H2
SMARTSM003550.003510331057IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028010351057IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.0E-910581086IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.57510631094IPR007087Zinc finger, C2H2
SMARTSM003552.310631089IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028010651089IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1099 aa     Download sequence    Send to blast
MPGSGFSPLG EDNSMAERLM EADDWENVGD TPWNMRVVPR TRGSLLKFMK DDIPGVTTPM  60
VYVGMMFSWF AWHVEDHELH SLNYSHLGAG KVWYGIPRDA RLAFEEVVRV QGYGGEVNPL  120
TTLFILGEKT TILSPEVLVA AGVPCCRLVQ NPGEFVVTFP GAYHSGFSLG FNCGEAANIA  180
TPEWLKVAKE AAIRRASINH PPMISHFQLL YKLALSLCSR MVEKNVNEQR SSRSKGKSKC  240
EGDIIIKEQF VKNVIQTNNL LGSITLDDKL SCVLLSQNKY DASLGPNSSS TGSQIKFQPN  300
FPTECSFPSS EFTERIHSFK CNTSEKRQHK CGGSSDQNLF SCVACGILSF ACVAIVWPTE  360
TAAMNLMTYG CSSLSDQSSD KDNIRNSNPS RYNDLVASGH SMASTINDEK ITYSGECQAQ  420
YPSQIEEIAS EGRLKKDLSS LSLIASAYGD SSDDDHPSPS KIVNKNKNEG HLQNKVSKNM  480
DFSLSKVKQY QRWSGLQLDH SGSFLMNKPD KDSSRIHVFC LEHALEVQRK LRSIGGACLL  540
LVCHSDYPKI EAEVKHMAKE LGVNNAWKNI NFKEPSSQDE QIIQSALEDK GAVPVNSDWS  600
VMMGFNLWFS ANISKSFLYS KQMPYNVVIY KVFGRDSSGT SPGKLRKMTR NGKQKKKVVV  660
SGKWCGKVWM SNQVHPYLAY VNENNDGKED DFVKNLRLGQ GTCRRKILTD FANHADAEKV  720
PIPRGSHLEI NMGSRSAIRR KKPSIRKNIK KPNYSQPENC DTIIDHDDSQ SVLADFAKHV  780
ETDKVRPSTS SHLEIETENI SVIRKNKPSK RKNSKKTKYN QLVNHDAIIN DDDDFERVLA  840
DFVNHVGVKK VRTSASRHLG VGTEMASKSS IKRKKTPKKK NTKKPKCSQP ENCDAIINDD  900
DDLVDSWRIL SSRSVKKLPS SPPNCTNDDE MVTAVGLDLE MDGVGSDGCS MAPPKRKSGR  960
HGTTEMKEDK NEETMVKQQY LCDMKGCSMS FNFEHELAMH KNNQCPVIGC GKKLFCHRYA  1020
VQHHRIHLDS RPLKCPWEGC GMTFKWKWPQ TEHYRVHTGE RPYVCQEPSC SKTFRFVSDF  1080
SRHKRKTGHV SVKRKRKI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A7e-5228251160380Transcription factor jumonji (Jmj) family protein
6ip4_A7e-5228251160380Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1871885KRKKTPKKKNTKKPK
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020106930.10.0lysine-specific demethylase REF6
SwissprotQ9STM30.0REF6_ARATH; Lysine-specific demethylase REF6
TrEMBLA0A0K9PP590.0A0A0K9PP59_ZOSMR; Uncharacterized protein
STRINGGSMUA_Achr10P03980_0010.0(Musa acuminata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP67183035
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]