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 KFK40064.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family C3H
Protein Properties Length: 1718aa    MW: 187827 Da    PI: 4.3415
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK40064.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.25.8e-0816941717225
                  -S---SGGGGTS--TTTTT-SS-S CS
     zf-CCCH    2 ktelCrffartGtCkyGdrCkFaH 25  
                  +++ C+ff++ G+C+ G++C++ H
  KFK40064.1 1694 GQRVCKFFREDGYCRKGASCNYLH 1717
                  6899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.103.6E-9562622IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579036.0E-7563618IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.609566632IPR019787Zinc finger, PHD-finger
CDDcd155681.42E-19568613No hitNo description
SMARTSM002493.1E-7568614IPR001965Zinc finger, PHD-type
PROSITE patternPS013590569629IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.245.101.5E-23764858IPR003121SWIB/MDM2 domain
SuperFamilySSF475926.1E-20768854IPR003121SWIB/MDM2 domain
PfamPF022012.2E-12791849IPR003121SWIB/MDM2 domain
PROSITE profilePS5136031.3159101042IPR004343Plus-3 domain
SMARTSM007191.8E-549101019IPR004343Plus-3 domain
SuperFamilySSF1590423.92E-359111039IPR004343Plus-3 domain
PfamPF031262.9E-249151017IPR004343Plus-3 domain
SuperFamilySSF552771.44E-1712471311IPR003169GYF domain
PROSITE profilePS5082916.48912581312IPR003169GYF domain
CDDcd000728.99E-1812581315No hitNo description
SMARTSM004442.2E-2112591314IPR003169GYF domain
Gene3DG3DSA:3.30.1490.402.4E-1712601313IPR003169GYF domain
PfamPF022134.4E-1412601301IPR003169GYF domain
PROSITE profilePS5010314.51116921718IPR000571Zinc finger, CCCH-type
PfamPF006428.6E-616941717IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-516961718IPR000571Zinc 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: 1718 aa     Download sequence    Send to blast
MDSDSTRASL EESMKDGSVS NEPNLTGTCG GDSSVVDEGG VMNGIDAVDE GEGAVSNSVA  60
EISDVGIVSP VVVEVGGEGE NNVDFVAQET GSVVEVGSLE PSSVVVEGRE EEQAVDKVPV  120
SGDGLEEKKE EEPLTHEVNV VDSLNVEEKR EESSQVTESE LEQEIEFEKE KIDVMEEETT  180
AQAASLEDLV SDIEIPDVQD VASVAGFTEI PSQDKVLDDS VLNSGSEFVE EEPSKELQIG  240
EGLKDQSDEG AKEDVNVTED AMGIQVMEKT EEEEKADTDT VLEIQAKPQE VDDVANEGNE  300
GSGINEALVG ESSASKETIM DDVKEDVEKD PEAMHVPEAV EEVETDAKYD AEIEKEGDGI  360
GAVGEAGQNV DLEETRELSE ELAKGDKTKI AEVSEETETM IKDEDEEKVD AMTDVMEDVE  420
THGDSSVAVI EEGREDNEEM GMTEMTETQE ETVMSKVDET KVAEKSVETE AGIKDEDEEK  480
DEDMTDVAED VEKDGASSVA ATEEGSENHE EMETTELTET QEESLMAETG DEEPEEVEED  540
NKSAGGKRKR VVNSKTVKGA GKKKEEDVCF MCFDGGDLVL CDRRGCPKAY HPACVGQDEA  600
FFSSKVKWNC GWHLCSKCEK TATYLCYTCM FSLCKGCAKD AAFFCVRGNK GLCETCMDAV  660
KLIERKEQEK EPAQLDFDDK TSWEYLFKDY WIDLKTQLSI SPEEIDQAKS PRKGHESHAS  720
KQGTANENDY VTDGGSDSDS SPKKRKTRSR SKSGSAEKIL SPAKKRSSGE TIEWASKELL  780
DVVAHMRRGD RSFLPQEEVH VLLLDYIKRY NLRDPRRKSQ VVCDTRLQNL FGKSHVGHFE  840
MLNLLETHFL KTEQQQADDI QGSIVDTEPD HVDVDENVDT PMKSGKDKKR KTRKKGARKG  900
RQSNLDDYAA VDMHNINLIY LRRSLVEDLL EDSTAFEEKV ASAFVRLRIS GNQKQDLYRL  960
VQVVGTSKAP EPYKVGKKTT DYVLEILNLN KTEVISIDII SNQDFTEDEC KRLKQSIKCG  1020
LINRLTVGDI QEKAIALQEV RVKNLLEAEI LRFSHLRDRA SDMGRRKELR ECVEKLQLLK  1080
SPEERQRRLE EIPEIHADPK MDPDCESEDD DDKEEKEKEK HLRLRSSSFN RRGIDPISPR  1140
KGGFSSNESW TGTSNYSNTS GNRELSRSYS GRGSAGRVDY PGTSEDKSSE TMWTSGRERE  1200
MQQSLGSEKP RSVSIPETAA RTPRGAGPLE LSPRTAPEIS MAPPAVVPQL VPKSNDSDKI  1260
WHYKDPSGKV QGPFSMAQLR KWNNTGYFPA KLEIWKATES SLDSILLTDA LAGIFQQQTQ  1320
SVDNSYMKAQ VAAYSGQSSQ SEPSLGSIAR TAPSNLDIPR NSQDTWSSGG GLPSPTPNQI  1380
STPTAKRRNF ESRWSPTKPS AQSAVQSVNL SLAQSGPSQA SRTDIPVVVN SAGALHPGPH  1440
PIPTSDPNVS VNHYGSTAAL PSPTPTGGKQ NWGSMQADKF VSHGPSSSQI SSATYGTVTP  1500
TVLPSQSQPG FPSSDSWRVP VPSQSNTQAQ APANNLSWGM NTVNSSQNTG QPQPNMGWVG  1560
PAQTGMNANW AASSVPPTGQ GMPNSGWGVQ GQPQAYPNTG WGVTGQAQAP AQSQAQVQAP  1620
GSSTSSGWMQ PSQGMQSGNN NQNWGTQNQT AIPSGGSGGN QAGFWGNQQN QNGDSGYGWN  1680
RQSSGSGGQN NFKGQRVCKF FREDGYCRKG ASCNYLHN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A9e-19553641287Histone-lysine N-methyltransferase NSD3
4gnd_C9e-19553641287Histone-lysine N-methyltransferase NSD3
4gne_A9e-19553641287Histone-lysine N-methyltransferase NSD3
4gnf_A9e-19553641287Histone-lysine N-methyltransferase NSD3
4gng_A9e-19553641287Histone-lysine N-methyltransferase NSD3
4gng_D9e-19553641287Histone-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
PlantRegMapKFK40064.1
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_020886241.10.0zinc finger CCCH domain-containing protein 19 isoform X2
SwissprotQ9SIV50.0C3H19_ARATH; Zinc finger CCCH domain-containing protein 19
TrEMBLA0A087HD620.0A0A087HD62_ARAAL; Uncharacterized protein
STRINGA0A087HD620.0(Arabis alpina)
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