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 Csa19g051060.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family C3H
Protein Properties Length: 1300aa    MW: 143421 Da    PI: 6.5906
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa19g051060.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.97.3e-0812751298225
                      -S---SGGGGTS--TTTTT-SS-S CS
         zf-CCCH    2 ktelCrffartGtCkyGdrCkFaH 25  
                      +++ C+ff+++G+C+ G++C++ H
  Csa19g051060.1 1275 GQRVCKFFRENGHCRKGASCNYLH 1298
                      6899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.103.7E-9147208IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579031.33E-8149205IPR011011Zinc finger, FYVE/PHD-type
CDDcd155684.85E-21153198No hitNo description
SMARTSM002492.5E-7153199IPR001965Zinc finger, PHD-type
PROSITE patternPS013590154214IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.245.101.5E-23349436IPR003121SWIB/MDM2 domain
SuperFamilySSF475922.4E-20351433IPR003121SWIB/MDM2 domain
SMARTSM001510.0073368433IPR019835SWIB domain
PfamPF022016.9E-13373428IPR003121SWIB/MDM2 domain
SMARTSM007199.4E-37490586IPR004343Plus-3 domain
PROSITE profilePS5136018.64490609IPR004343Plus-3 domain
SuperFamilySSF1590421.83E-24491606IPR004343Plus-3 domain
PfamPF031266.8E-15495572IPR004343Plus-3 domain
SuperFamilySSF552772.09E-18817884IPR003169GYF domain
CDDcd000724.13E-18831888No hitNo description
PROSITE profilePS5082916.314831885IPR003169GYF domain
SMARTSM004441.0E-23832887IPR003169GYF domain
Gene3DG3DSA:3.30.1490.403.2E-17833885IPR003169GYF domain
PfamPF022131.0E-13833873IPR003169GYF domain
PROSITE profilePS5010314.66212731299IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-512751298IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-512771299IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1300 aa     Download sequence    Send to blast
MDSDSPRASL ESXDSSVADI EQGREDHEDM GLTEMTETQE ETAMGKVDGT NIAEVSEETE  60
TRIEDRGQGK DDVMTDVAED VVTHGDSSLA DIEEGKKNHE DITETQEESV TAASGDEDPE  120
DVDEETKSAG GKRKRGRNTK TVKGTGKKKE EDVCFMCFDG GDLVLCDRRG CPKAYHPSCV  180
DRDEAFFQSK GKWNCGWHLC SKCEKAATYL CCTCMFSLCK GCAKDAVFFC IRGNKGLCET  240
CMETVKLIER KEQEKEPAQL DFDDKTSWEY LFKDYWIDLK TQLSLSPEEL DQAKSPRKGQ  300
ESNASKQGTA SETDYVTDGG SDSDSSPKKR KTRSRSKSGS PANKNFSGET TEWASKELLD  360
VVVHMRRGDR SFVPESDVQN LLLAYIKRYN LRDPRRKSQV ICDSRLQNLF GKSHVGHFEM  420
LNLLDSHLLK KEQNQSDDIQ SDIADTEEPN HVDVDENSDH PMKSGKDKKR KTRKKSVRKG  480
RQSNLDDFAA VDLHNINLIY LRRSLVEDLL EDSAAFEEKV ASAFVRLRIS GNQKQDIYRL  540
VQVVGTSKSP EPYKVGKKTT DFVLEILNLD KTEVDECKRL KQSIKCGLIN RLTVGGIQEK  600
AIALQEVRVK NLLEAEILRF SHLRDRASDM GRRKEYPYLL RFTKCVEKLQ LLKSPEERQR  660
RLEEIPEIHA DPKMDPDCES EDEDEKEEME KEKQLRPRSS SFNRRGRDPI SPRKGGFSSN  720
ESWTGTSKYS KTSANRELSR SYSGRGSNGR GDYLGTSDDM VSENMWPSAR EREVQPSLGS  780
EKPRPVTIPE TTPRSSRAVA PPELSPRIAP EIPTAPPAVV QQPVPKSNES EKIWHYKDPS  840
GKVQGPFSMA QLRKWNNTGY FPAKLEIWKA KESPLDSIFL TDALAGLFQK QTQVVNSSYT  900
KTQVAAYSGQ SSQSDSNLGS TARTAPTIEI PRNSQDTWSQ GGSLPSPTPN QITTPTAKRR  960
NFESRWSPTK HSPQSPNQLM NYTVAQSGQS QASRIDIPVV VNSAVSLQPQ TYPIPASDSM  1020
NASVIHPATL PSPTPAGGKQ SWGSMQTDHR GSDALSSQNS STSYGTTNPS VLPSQSQPGF  1080
PPSDSWKVAA PSQPNPQAQT HWGMNMVNNQ NSGQLQAPAN QNSSWGQGTV NPNMGWVGPA  1140
QAGGNVNWAG SSVPSTGQGI PNSGWGGPVQ GQPQAYPNPG WGVTAVPQAQ AQAQAQVQAP  1200
VSTTGAGWIQ PGQGMQSGNN NQNWGTQHQM AIPSGGSGGN QAGYWGNQQN QNGDSGYGWN  1260
RQSSGSGGQN NNFKGQRVCK FFRENGHCRK GASCNYLHN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A2e-19138227288Histone-lysine N-methyltransferase NSD3
4gnd_C2e-19138227288Histone-lysine N-methyltransferase NSD3
4gne_A2e-19138227288Histone-lysine N-methyltransferase NSD3
4gnf_A2e-19138227288Histone-lysine N-methyltransferase NSD3
4gng_A2e-19138227288Histone-lysine N-methyltransferase NSD3
4gng_D2e-19138227288Histone-lysine N-methyltransferase NSD3
Search in ModeBase
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
PlantRegMapCsa19g051060.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0070470.0AC007047.7 Arabidopsis thaliana chromosome 2 clone F16F14 map mi398, complete sequence.
GenBankCP0026850.0CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010489220.10.0PREDICTED: zinc finger CCCH domain-containing protein 19-like
SwissprotQ9SIV50.0C3H19_ARATH; Zinc finger CCCH domain-containing protein 19
TrEMBLA0A1P8B1D00.0A0A1P8B1D0_ARATH; GW repeat-and PHD finger-containing protein NERD
STRINGXP_010489220.10.0(Camelina sativa)
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