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 676740844
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family C3H
Protein Properties Length: 1864aa    MW: 203606 Da    PI: 4.299
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676740844genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.81.6e-0718401863225
                 -S---SGGGGTS--TTTTT-SS-S CS
    zf-CCCH    2 ktelCrffartGtCkyGdrCkFaH 25  
                 +++ C+f++++G+C+ G+ C++ H
  676740844 1840 GQRVCKFYRENGHCRKGAACNYLH 1863
                 6899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.109.9E-10681741IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579031.17E-7683740IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.716685751IPR019787Zinc finger, PHD-finger
CDDcd155682.65E-21687732No hitNo description
SMARTSM002498.5E-8687733IPR001965Zinc finger, PHD-type
PROSITE patternPS013590688748IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.245.108.6E-24884975IPR003121SWIB/MDM2 domain
SuperFamilySSF475929.37E-21890974IPR003121SWIB/MDM2 domain
PfamPF022011.5E-12911969IPR003121SWIB/MDM2 domain
SMARTSM007198.6E-5410301139IPR004343Plus-3 domain
PROSITE profilePS5136030.29610301162IPR004343Plus-3 domain
SuperFamilySSF1590427.85E-3510311159IPR004343Plus-3 domain
PfamPF031263.7E-2410351137IPR004343Plus-3 domain
SuperFamilySSF552777.06E-1913721438IPR003169GYF domain
CDDcd000724.60E-2013851442No hitNo description
PROSITE profilePS5082916.82413851439IPR003169GYF domain
Gene3DG3DSA:3.30.1490.401.2E-1713861439IPR003169GYF domain
SMARTSM004441.8E-2413861441IPR003169GYF domain
PfamPF022135.7E-1413871426IPR003169GYF domain
PROSITE profilePS5010314.26718381864IPR000571Zinc finger, CCCH-type
PfamPF006422.9E-518401863IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.8E-418421864IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010964Biological Processregulation of chromatin silencing by small RNA
GO:0032776Biological ProcessDNA methylation on cytosine
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
GO:0042393Molecular Functionhistone binding
Sequence ? help Back to Top
Protein Sequence    Length: 1864 aa     Download sequence    Send to blast
MDSDSAKASV ESMQDDVECT HVSNEPNLGD SSLAEEEGGC EGSGGVTSEL VGSIEGGGAL  60
LNSVSEISEA RSPVSTELSP AVMGGGRGEE ENAASVVQER DSMEEPSSVV VEGGEEEPVA  120
LIVKEEDSAV EHSEKDSTLE EKTEPSSLNL PASEVKGEEG QQVVSGGMVD EKSSEVIESN  180
LGQNAESGKE EANVMEEDIT AQAASLEGQK EVSGGMVDEK SSEAEESNLG QNTESGMEKV  240
DVMEEDTTAQ TASLEDIVSV NMEIPDVKEV ASVAGFTEIP SRDKGSVFVE EGAKDLTDGD  300
LEEEVSVKED GMVNQEPNKT EEEEKPDAFA VSEIQTNPQE VDDVEFLENN EAPVSGSISS  360
AGTEDDVKED VEKDTEDGKS EDVHVSEAAE EVETDDKHGA GIEKEGDGMG GVGEAGQTVD  420
LEEIRELEEL AKGDETKIAD VSEETVEVIR DDDQEKDDEM TDLVEDVKTR GDPSVADVEE  480
GREDREQIGM TELTETQEES VEGKADGTKV DEMSEETERR IEDEDEEKDD DLKNVSENVE  540
TPGDVYSSIA DIEEGREDHE EKGMTEMTEM TETQEESVKG KADGTKIAEM SEETETRTED  600
EDQEKDENMT DVETHGDSSA ADVEEGRDSQ EEMETTELTE TQEDSAMAGT GDEEPEEVEE  660
ETKSAGGKRK RVTKTVKGAG KKKEEDVCFM CFDGGDLVLC DRRGCPKAYH PSCVDRDEEF  720
FRSKGKWNCG WHQCSKCEKT ATYLCYTCMF SLCKGCAKDS VFFCIRGNKG LCETCMETIK  780
LIEREEQEKK EPAQLDFDDK TSFESLFKDY WIDLKTQLSL SSEELDQAKS PQKGNESNAG  840
KQGTARETDY ATDEGSDSDN SPKKRKTRSR SKSGSAEKIL SPANKRSSGE TTQWASKELL  900
DVVAHMRRGD RSFLPHSEVH VLLLDYIKRY NLRDPRRKSQ VVCDSRLKNL FGKSHVGHFE  960
MLNLLETHFL KKEQPQADDI QGSTVDTEPD YADVDENLDL PMKSGKDKKR KPRKKGSRKG  1020
RQSNLDDFAA IDIHNINLIY LRRSLVEDLL DDSAVFEEKV ASAFVRLRIS GNQKQDLYRL  1080
VQVVGTSKAP EPYKVGKKTT DFVLEILNLD KTEVISIDII SNQDFTEDEC KRLKQSIKCG  1140
LINRLTVGDI QEKAIALQEV RVKNLLDAEI LRYGHLRDRA SDMGRRKEYP YLLKLSKCVE  1200
KVQLLKSPEE RQRRLEEIPE IHADPKMDPD CESEDEDEKE EKEKEKNLRP RSSSFNRRGR  1260
DPISPRKGGF SSNESWTGSS NYSNTSANRE LSRSYSGRGS TGGDYLGSFE DKASDSLWTS  1320
GREREREMQQ SLGSEKPRSV SLPDPAPRNS RAAAPPELSP RIVPEISTAP PAVLPQPAPK  1380
PNESEKMWHY KDPSGKVQGP FSMAQLRKWN NTGYFPAKLE IWKANESPLD SVLLTDALAG  1440
LFQKQTHSVD NTYVKVQVAA YSGQSTQAEP NLGSSARIAP SVLDVPRNSQ DTWSSVGSLP  1500
SPTPNQITTP TAKRRNFESR WSETKPSPQS AVQPMNFPSA QSGSSQTLRT DIPMVLNPAV  1560
ALQPIPTADT VNHYGSAAPL PSPTPVGGNQ SWGNMHTDKF NSHGRGGGDA PSSSQNSSAS  1620
YGTPTPSVLP SQSQSGFPSS DSWRAPVPSQ SNTQAQAPAW GMNNSQNSGQ PQAPANQNNS  1680
WSQGGGNTNM GWAGPPQAGM NVNWAGSSVP PTGQGMANTG WGGPVQVQPQ AYTNAGWGAT  1740
GQAQSQTQVQ APGSGTSSGW MQPAQGMQPA QGMQPAQGMQ SGNSNQNWGT QNQTPMPSGG  1800
SGGNQAGYWG NQQNQNGDSG YGWNRQSSGS GNGGLNNFKG QRVCKFYREN GHCRKGAACN  1860
YLHN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A4e-19674754481Histone-lysine N-methyltransferase NSD3
4gnd_C4e-19674754481Histone-lysine N-methyltransferase NSD3
4gne_A4e-19674754481Histone-lysine N-methyltransferase NSD3
4gnf_A4e-19674754481Histone-lysine N-methyltransferase NSD3
4gng_A4e-19674754481Histone-lysine N-methyltransferase NSD3
4gng_D4e-19674754481Histone-lysine N-methyltransferase NSD3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
110071018KKRKPRKKGSRK
Functional Description ? help Back to Top
Source Description
UniProtPlays a central role in integrating RNA silencing and chromatin signals in 21 nt siRNA-dependent DNA methylation on cytosine pathway leading to transcriptional gene silencing of specific sequences. Involved in a chromatin-based RNA silencing pathway that encompasses both post-transcriptional gene silencing (PTGS) (e.g. RDR1, RDR6 and AGO2) and transcriptional gene silencing (TGS) (e.g. siRNA-dependent DNA methylation and histone H3) components. Mediates siRNA accumulation at specific chromatin loci. Binds H3K4me0 through its PHD to enforce low levels of H3K4 methylation and gene silencing at a subset of genomic loci. {ECO:0000269|PubMed:22940247}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap676740844
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_018456793.10.0PREDICTED: zinc finger CCCH domain-containing protein 19-like
SwissprotQ9SIV50.0C3H19_ARATH; Zinc finger CCCH domain-containing protein 19
TrEMBLA0A397XSH40.0A0A397XSH4_BRACM; Uncharacterized protein
STRINGBra037299.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54221620
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G16485.10.0nucleic acid binding;zinc ion binding;DNA binding