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 Csa01g034570.1
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: 1996aa    MW: 216052 Da    PI: 4.2924
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa01g034570.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.31.2e-0719711994225
                      -S---SGGGGTS--TTTTT-SS-S CS
         zf-CCCH    2 ktelCrffartGtCkyGdrCkFaH 25  
                      +++ C+ff+++G+C+ G++C++ H
  Csa01g034570.1 1971 GQRVCKFFRENGHCRKGASCNYLH 1994
                      6899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.109.1E-10830890IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579032.64E-7833895IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.556834900IPR019787Zinc finger, PHD-finger
SMARTSM002492.5E-7836882IPR001965Zinc finger, PHD-type
CDDcd155688.56E-21836881No hitNo description
PROSITE patternPS013590837897IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.245.102.5E-2310321119IPR003121SWIB/MDM2 domain
SuperFamilySSF475924.14E-2010341116IPR003121SWIB/MDM2 domain
SMARTSM001510.007310511116IPR019835SWIB domain
PfamPF022011.1E-1210561111IPR003121SWIB/MDM2 domain
PROSITE profilePS5136030.06211731305IPR004343Plus-3 domain
SMARTSM007199.8E-5511731282IPR004343Plus-3 domain
SuperFamilySSF1590421.96E-3411741302IPR004343Plus-3 domain
PfamPF031261.2E-2411781280IPR004343Plus-3 domain
SuperFamilySSF552772.35E-1815131580IPR003169GYF domain
CDDcd000724.26E-1915271584No hitNo description
PROSITE profilePS5082916.51815271581IPR003169GYF domain
SMARTSM004441.3E-2315281583IPR003169GYF domain
Gene3DG3DSA:3.30.1490.402.0E-1715291581IPR003169GYF domain
PfamPF022131.6E-1315291568IPR003169GYF domain
PROSITE profilePS5010314.66219691995IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-519711994IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.6E-519731995IPR000571Zinc 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: 1996 aa     Download sequence    Send to blast
MDSDSPRASL ESFKDDDSEC AHVSNEPNLE ETCGGGSSVG GEGVRDVNSS AAASELVPPE  60
PVSADENGEG AGLNSVPEIG DVVEGGAPVD VVVSSELSPV VGRGGGEDAA FDVQERDSVG  120
GEATAVEPSS VVGEGGEEEG TASIVRKGDF SVEGSDSKAN LSGDRPEENK EVSMEEEHPS  180
HDLSGYEVNG VDSLNAEVKR EEGEQVVCGG VAGEESSQAI EMLYPAKKLI PFSRLMDSDS  240
PRASLESFKD DDSECAHVSN EPNLEETCGG GSSVGGEGVR DVNSSAAASE LVPPEPVSAD  300
ENGEGADLNS VHEISDVVDG GAPVDVVVSS ELSPLVGGGG EEEDAAFDVQ EMDSVGGEAT  360
AVEPSSVVGE GGEEEGDSKA NLSGDRPEEN KEVSMEEEPS GYEVNGVDSL NAEVKREEGE  420
QVVCGGVAGE ESSQAVESEL GENTEYEKEK VDLMEEETAA QAASLVNDIE IPDDKEVACE  480
NEFVEEEPVK EELQIGEGAK DLTDGDAKEG VDGIEDAMDI QVLKKSEEEE KLDGAAVSDI  540
ETKPQEMDDV ATVVSEKTAV PVDISSAVVT QFAGETSNDK EIIKNDVKED AENDSEAGKS  600
LDIHVPEAAE EVETDVKYGD GIEKEGDGLG GEGKAGQTVD LDESREENQE LSHEVAKVDE  660
TKISEVSEEA EPMIGDADKE KDDDMTDLAE DMETHGDSSV ADIEQGREDH EDMGLTEMTE  720
TQEETAMGKV DGTNIAEVSE ETETRIEDRG QGKDDVMTDV AEDVVTHGDS SLADIEEGKK  780
NHEDITDTLE ESVTAEMGDE DPEDVDEETK SAGGKRKRGR NTKTVKGTGK KKEEDVCFMC  840
FDGGDLVLCD RRGCPKAYHP SCVDRDEAFF QSKGKWNCGW HLCSKCEKAA TYLCYTCMFS  900
LCKGCAKDAV FFCIRGNKGL CETCMETVKL IERKEQEKEP AQLDFDDKTS WEYLFKDYWI  960
DLKTQLSLSP EELDQAKSPR KGQESNASKQ GTASETDYVT DGGSDSDSSP KKRKTRSRSK  1020
SGSPANKNFS GETTEWASKE LLDVVVHMRR GDRSFVPESD VQNLLLAYIK RYNLRDPRRK  1080
SQVICDSRLQ NLFGKSHVGH FEMLNLLDSH LLKKEQNQSD DIQSDIADTE EPNHVDVDEN  1140
SDHPMKSGKD KKRKTRKKSV RKGRQSNLDD FAAVDLHNIN LIYLRRSLVE DLLEDSAAFE  1200
EKVASAFVRL RISGNQKQDI YRLVQVVGTS KAPEPYKVGK KTTDFVLEIL NLDKTEVVSI  1260
DIISNQDFTE DECKRLKQSI KCGLINRLTV GGIQEKAIAL QEVRVKNLLE AEILRFSHLR  1320
DRASDMGRRK EYPYLLRFTK CVEKLQLLKS PEERQRRLEE IPEIHADPKM DPDCESEDED  1380
EKEEMEKEKQ LRPRSSSFNR RGRDPISPRK GGFSSNESWT GTSKYSKTSA NRELSRSYSG  1440
RGSNGRGDYL GSSDDMVSEN MWPSAREREV QPSLGSEKPR SVTIPETTPR SSRAVAPPEL  1500
SPRIAPEIPT APPAVVQQPV PKSNESEKIW HYKDPSGKVQ GPFSMAQLRK WNNTGYFPAK  1560
LEIWKAKESP LDSILLTDAL AGLFQKQTQA VNNSYTNTQV AAYSGQSSQS DSNLGSTART  1620
APTIEIPRNS QDTWSQGGSL PSPTPNQITT PTAKRRNFES RWSPTKHSPP SPNQLMNYAV  1680
AQSGQSQASR IDGPVVVHSA GALQPQTYPI PTSDSINASV IHPATLPSPT PTGGKQSWGS  1740
MQTDHRGSDA LSSQNSSTSY GTTNPSVLPS QSQPGFPPSD SWKVAAPSQP NPQAQTHWGM  1800
NMVNNQNSGQ LQAPANQNSS WGQGTVNPNM GWVGPAQAGG NVNWAGSSVP STGQGIPNSG  1860
WGGPVQGQPQ AYPNPGWGVT AVPQAQAQSQ AQVQAPVSTT GAGWIQPGQG MQSGNNNQNW  1920
GTQHQMAIPS GGSGGNQAGY WGNQQNQNGD SGYGWNRQSS GSGGQNNNFK GQRVCKFFRE  1980
NGHCRKGASC NYLHN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A8e-20821910288Histone-lysine N-methyltransferase NSD3
4gnd_C8e-20821910288Histone-lysine N-methyltransferase NSD3
4gne_A8e-20821910288Histone-lysine N-methyltransferase NSD3
4gnf_A8e-20821910288Histone-lysine N-methyltransferase NSD3
4gng_A8e-20821910288Histone-lysine N-methyltransferase NSD3
4gng_D8e-20821910288Histone-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
PlantRegMapCsa01g034570.1
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_010516667.10.0PREDICTED: zinc finger CCCH domain-containing protein 19-like isoform X4
SwissprotQ9SIV50.0C3H19_ARATH; Zinc finger CCCH domain-containing protein 19
TrEMBLR0HWB10.0R0HWB1_9BRAS; Uncharacterized protein
STRINGXP_010516649.10.0(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