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 SapurV1A.0459s0120.1.p
Organism
Salix purpurea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Salix
Family C2H2
Protein Properties Length: 1684aa    MW: 190657 Da    PI: 9.0069
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SapurV1A.0459s0120.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.90.000715671592123
                              EEET..TTTEEESSHHHHHHHHHH.T CS
                 zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                              y+C    C++sF +k +L  H r+ +
  SapurV1A.0459s0120.1.p 1567 YQCDidGCTMSFGSKQDLAMHKRNiC 1592
                              99********************9877 PP
2zf-C2H212.80.0003615921614323
                              ET..TTTEEESSHHHHHHHHHHT CS
                 zf-C2H2    3 Cp..dCgksFsrksnLkrHirtH 23  
                              Cp   Cgk F ++ +L++H r+H
  SapurV1A.0459s0120.1.p 1592 CPakGCGKKFFSHKYLVQHRRVH 1614
                              9999*****************99 PP
3zf-C2H211.60.0008816501676123
                              EEET..TTTEEESSHHHHHHHHHH..T CS
                 zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                              y+C    Cg++F+  s++ rH r+  H
  SapurV1A.0459s0120.1.p 1650 YVCAeeGCGQTFRFVSDFSRHKRKtgH 1676
                              89********************99666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005456.1E-152970IPR003349JmjN domain
PROSITE profilePS5118313.7443071IPR003349JmjN domain
PfamPF023753.9E-143164IPR003349JmjN domain
SuperFamilySSF511978.51E-27118177No hitNo description
SMARTSM005581.4E-49196365IPR003347JmjC domain
PROSITE profilePS5118433.982196365IPR003347JmjC domain
SuperFamilySSF511978.51E-27214361No hitNo description
PfamPF023735.1E-37229348IPR003347JmjC domain
SMARTSM003558.315671589IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.81915901619IPR007087Zinc finger, C2H2
SMARTSM003550.01915901614IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-515911618IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028015921614IPR007087Zinc finger, C2H2
SuperFamilySSF576671.05E-916061648No hitNo description
Gene3DG3DSA:3.30.160.601.3E-816191644IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001416201644IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.74116201649IPR007087Zinc finger, C2H2
PROSITE patternPS00028016221644IPR007087Zinc finger, C2H2
SuperFamilySSF576676.28E-816381672No hitNo description
Gene3DG3DSA:3.30.160.603.5E-916451672IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.8516501676IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.67916501681IPR007087Zinc finger, C2H2
PROSITE patternPS00028016521676IPR007087Zinc 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: 1684 aa     Download sequence    Send to blast
MAAPSGLSSE PPQPPTSTEV CQWLKNLPLA PEYRPTLSEF QDPIAYIFKI EKEASQYGIC  60
KIIPPVSPPA KKTTLSNLNR SLSARNGDFS APTFTTRQQQ IGFCPRKPRP VQKPVWQSGE  120
TYTFQEFETK AKSLEKNYLK KFSKKGGLSP LEIENLYWKA TLDKPFSVEY ANDMPGSAFS  180
PRKKEGQGGV VGEGMSLGET EWNMRCVSRA KGSLLRFMKE EIPGVTSPMV YIGMIFSWFA  240
WHVEDHDLHS LNYMHMGAGK TWYGVPREAA VAFEEVVRAH GYCGENNPLV TFAVLGEKTT  300
VMSPEVFVSA GVPCCRLVQN AGEFVVTFPR AYHSGFSHGF NCGEAANIAT PEWLIVAKDA  360
AIRRASINYP PMVSHFQLLY DLALEFCTRI PVNISAKPRS SRLKDKQKGE GETLVKEQFV  420
KNVMHNNDLL HTLGKGSSVV LLPRSSSDIS VCSKLRVGSQ LRVNPTLGLS SPKDFMKSSK  480
NSGSDDILLD ENQEINQVKG FFSVKAKFAS LCERNRFSTL NGNECTQSMN STERVSSIHG  540
DKLSDQRLFS CVTCGILSFD CLAIIRPKEA ASRYLMSADC SFFNDWVVGS GVTRDVLTVA  600
GGTANMTEQN SSMRWRKNPV AGLYDVPVQS LNHQIQMADQ SVEVAPSSTK QMESSALGLL  660
ALNYGNSSDS EDDQVEADLS CQDETNLANS SLESKYQGQS SAFPSYRQKC YDAETGVHPP  720
SPSKHDQQGD ITFKAIYMYP EHGDRPDNFK ARSDDTLGCS FGFPADNPAC FESNSLDGRY  780
RDPMSMPHMS LNCSPIVQDT EKTKFNRPTV PIENPDMPFT QRSDKDSSCM HVFCLEHAVE  840
IEQQLRQMGG VHIFLLCHPE YPRIEAEAKS VSEELGIDHL WNDITFRDAA REDEERIQSA  900
LDTEEAIPGN GDWAVKLGIN LFYSANLSRS PLYSKQMPYN SVIYNAFGCA SPVSSPPKFK  960
VYGRRSGKPK KVVAGKWCGK VWMSNQVHPF LVKRDFVYQN KKQEQERSFH ALATPDEKLE  1020
KKPLTIHKNE TSRKSGRKRK TITESGAIKK VKCLEAEEAD SEDSVGDNSH RQHMRIHNRK  1080
NSEDIEREIS YDLVEDSNQQ HGSYRRKWAK SVESDDAVSD DPLAEHVRQQ YRRMCRNKQA  1140
RSIKRENTVS YVSVENKFRK QLRRVHRSDQ AKCSERRCVA SDDSLDDNSD QWHERAQRST  1200
LVKYAESEDA NSDDSPEESS RWQHGRVSRS KHLKYIKNES AISDDSLENG SNQHKRKSRG  1260
KRAQVSKRDD AVSNDSLDES AFQQLPRFSR SKLAKLIERE DAISYGSLEE NTHQQHERIL  1320
RSKQSKFVER EDAISDDSLE DNIHWQHRRI PRSKMAKFVE SEDAASDDLQ EDDGHQHLRR  1380
IPKGKKAISI ESGYVISDNL WENNTHRHRR KTPRGKQPSI VESEDAVSDD LLENNSDKQD  1440
RSIHRSKQKK YSMKQGIHGQ LKQGAPKMIK RETPQLMKQE RQIKPETPRL RFGKSYMNAR  1500
QFDSHAEEER EAGPGTRLRK RLSKAPKQLV KKLKEKQNIK KKVKDATAVK APAGRKSVKM  1560
KDEEAEYQCD IDGCTMSFGS KQDLAMHKRN ICPAKGCGKK FFSHKYLVQH RRVHIDERPL  1620
KCPWKGCKMT FKWAWARTEH IRVHTGARPY VCAEEGCGQT FRFVSDFSRH KRKTGHLAKK  1680
GRG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-79183793346Transcription factor jumonji (Jmj) family protein
6ip4_A2e-79183793346Arabidopsis JMJ13
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSapurV1A.0459s0120.1.p
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_011040431.10.0PREDICTED: lysine-specific demethylase REF6-like
SwissprotQ9STM30.0REF6_ARATH; Lysine-specific demethylase REF6
TrEMBLA0A2K1YB810.0A0A2K1YB81_POPTR; Uncharacterized protein
STRINGPOPTR_0012s09390.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF56483250
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]