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 Potri.004G161700.2
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family C3H
Protein Properties Length: 1608aa    MW: 175887 Da    PI: 4.4819
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.004G161700.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.71.5e-0615831606225
                          -S---SGGGGTS--TTTTT-SS-S CS
             zf-CCCH    2 ktelCrffartGtCkyGdrCkFaH 25  
                          ++++C+++++ G+Ck G++C ++H
  Potri.004G161700.2 1583 GQRICKYHHEHGHCKKGASCDYMH 1606
                          689********************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.107.7E-9423491IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579035.09E-8436490IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.814437503IPR019787Zinc finger, PHD-finger
CDDcd155686.88E-21439484No hitNo description
SMARTSM002492.2E-8439485IPR001965Zinc finger, PHD-type
PROSITE patternPS013590440500IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.245.104.2E-27653741IPR003121SWIB/MDM2 domain
SuperFamilySSF475923.05E-21655734IPR003121SWIB/MDM2 domain
PfamPF022011.0E-15660733IPR003121SWIB/MDM2 domain
SMARTSM001512.7E-4677738IPR019835SWIB domain
PROSITE profilePS5136030.82794927IPR004343Plus-3 domain
SMARTSM007195.9E-49794904IPR004343Plus-3 domain
SuperFamilySSF1590421.11E-34795924IPR004343Plus-3 domain
PfamPF031265.8E-24799902IPR004343Plus-3 domain
SuperFamilySSF552771.96E-1811161179IPR003169GYF domain
CDDcd000724.52E-1711261181No hitNo description
PROSITE profilePS5082916.311261180IPR003169GYF domain
SMARTSM004446.9E-1811271182IPR003169GYF domain
Gene3DG3DSA:3.30.1490.403.7E-1811281180IPR003169GYF domain
PfamPF022134.8E-1411281172IPR003169GYF domain
PROSITE profilePS5010312.8515811607IPR000571Zinc 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: 1608 aa     Download sequence    Send to blast
METEEEENSI NPSRSSIELE NESNLTTTIT TTTTTTDTES VAELNESNAS QLGITDTDLL  60
QQQSQPPQSQ TETTVVDMSD AQDFVVGDSG SVSPQHLVIE GREGEEVAEA TEGSGEIEAP  120
REVVEKEVEN RDLVAKEERN EDVSGYANAG NNEMDTETEG VADVAAELET ETSSQEVEAM  180
EEEVAEAKEE LAEDENTENM ENADVVEEKK EGADVVDKVE MDSVVKETKT VRVKEEEERV  240
DNTEIYGVGD EMEAVEQREI TDVVEEGKVE KTEVVADVAR ETEDVERVGM TEIVEEEKAE  300
KIEVNEEKQS ALQVEMTDFA EETGEDEKNE MTDIAEEIKV AGQLETTDVA GGTEQAIDEE  360
GEAMETKMID VAEEGDKEED TEMDMAEKGN EGDDMADEAE GVGEGVEEVG RSGGGKRKRG  420
KNAKTPSRAT SKKKMEEDVC FICFDGGELV LCDRRGCSKA YHPSCVNRDE AFFRAKGRWN  480
CGWHLCSNCV KNAYYMCYTC TFSLCKGCIK DAVILCVRGN KGFCETCMKT IMLIERNEQG  540
SKETVQVDFD DKSSWEYLFK DYWNDLKERL SLTPEELAQA KNPWKGSDSH TGKQELADEL  600
YDVHNDGGSG SDSSADAEVT TSRRRKPKKR LRSRAKEKDS PGSVSWAEGE SADESVEWAS  660
KELLEFVMHM KNGDKSACSQ FDVQALLLDY IKRNKLRDPR RKSQIICDSR LENLFGKPRV  720
GHFEMLKLLE SHFLLKDDSQ ADDLQGSVVD TESSQLEADG NSDALTKASK DKRRKSRKKG  780
EGRGLQSNID DYAAINMHNI NLIYLRRSLL EDLIEDTEAF HDKAVGSFVR IRISGNAQKQ  840
DLYRLVQVIG TSKAAEPYRV GKKMTSFMLE ILNLNKTELV SIDIISNQEF TEDECKRLRQ  900
SIKCGLINRL TVGDIQEKAI AIQAVRVQDS LESEITRLSH LRDRASDMGH RKELRECVEK  960
LQLLKTPEER QRRLEEIPEI HADPNMDPSH ESDEDEGETE DKRQENSLRP RGSGFSRKGR  1020
EPISPRKGGF TSNDTWGGSK SYSSTNRELS RNLSDKGFSS KGDDIGGGES VNENFWGQGR  1080
EKQTQQSQST NSTVISESVP GIALEISPST PSTVVTQSAS KVNEAEKIWH YQDPSGKIQG  1140
PFSMVQLRKW SNTGYFPVDL RIWRNTGTKD DSILLTEALS GNFQRDPPAV DNSFLKTQLV  1200
QSPHLPSSFT GNIAQAAPVP VEVPKYSTDR WDSGTNLPSP TPGQTTPSLT KGQVFESQWS  1260
PTPAQPVGSA LGANQSSGGN VELQGATVIS GTPSKMSHGV SPLPKLEPGM LSISSNGPQM  1320
HSQSTLPGES PRPSAYSNWG NAQTSVRNPS SSLTTGNPSG VSPVPSTGTN PWRAPVPGPS  1380
NIQPSVPSSG PWGMGITDNQ GATPRQGPEN QNTSWGPIPG NQNMGWGVSL PANSNQGWAV  1440
PGQVPSAGNV NPGWGAPVQG QAPGNANPAW GGAPVQGPAP GNAFSGWGPS GQGPAPTNAN  1500
TGWVPPSQGP PPPPNANTNW SVPTGNAGTW GSDANQNGDR DRFSSQRDRG SHGGDSGYGG  1560
GKPWNRQSSF NRSRDSPRPP FKGQRICKYH HEHGHCKKGA SCDYMHN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A2e-18430514889Histone-lysine N-methyltransferase NSD3
4gnd_C2e-18430514889Histone-lysine N-methyltransferase NSD3
4gne_A2e-18430514889Histone-lysine N-methyltransferase NSD3
4gnf_A2e-18430514889Histone-lysine N-methyltransferase NSD3
4gng_A2e-18430514889Histone-lysine N-methyltransferase NSD3
4gng_D2e-18430514889Histone-lysine N-methyltransferase NSD3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1625631KPKKRLR
2626632PKKRLRS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.176750.0bud
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, mostly in the vasculature and shoot apices of young seedlings. {ECO:0000269|PubMed:22940247}.
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
PlantRegMapPotri.004G161700.2
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_024455876.10.0zinc finger CCCH domain-containing protein 19
SwissprotQ9SIV50.0C3H19_ARATH; Zinc finger CCCH domain-containing protein 19
TrEMBLA0A2K2AVJ60.0A0A2K2AVJ6_POPTR; Uncharacterized protein
STRINGPOPTR_0004s16880.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G16485.10.0nucleic acid binding;zinc ion binding;DNA binding