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 RrC8217_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C3H
Protein Properties Length: 1270aa    MW: 140060 Da    PI: 7.0654
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC8217_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.71.5e-0612491270426
                  ---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH    4 elCrffartGtCkyGdrCkFaHg 26  
                  ++C+ f+++G+Ck+G+ C+F H+
  RrC8217_p1 1249 KICK-FYESGHCKRGAACSFWHP 1270
                  6899.8999***********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.105.1E-776137IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579032.08E-778136IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.58282148IPR019787Zinc finger, PHD-finger
CDDcd155682.26E-1884129No hitNo description
SMARTSM002491.6E-684130IPR001965Zinc finger, PHD-type
PROSITE patternPS01359085145IPR019786Zinc finger, PHD-type, conserved site
SuperFamilySSF475923.05E-22297374IPR003121SWIB/MDM2 domain
Gene3DG3DSA:1.10.245.105.4E-24298378IPR003121SWIB/MDM2 domain
SMARTSM001516.9E-4299378IPR019835SWIB domain
PfamPF022011.3E-14302373IPR003121SWIB/MDM2 domain
SMARTSM007193.7E-48432542IPR004343Plus-3 domain
PROSITE profilePS5136020.155432565IPR004343Plus-3 domain
SuperFamilySSF1590422.48E-27433561IPR004343Plus-3 domain
PfamPF031266.1E-19437540IPR004343Plus-3 domain
SuperFamilySSF552772.49E-15693749IPR003169GYF domain
PROSITE profilePS5082914.959696750IPR003169GYF domain
CDDcd000727.23E-17696749No hitNo description
SMARTSM004441.9E-12697752IPR003169GYF domain
Gene3DG3DSA:3.30.1490.407.8E-16698749IPR003169GYF domain
PfamPF022132.2E-10698739IPR003169GYF domain
SuperFamilySSF902292.43E-512451269IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.11712451270IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.6E-412491269IPR000571Zinc finger, CCCH-type
PfamPF006422.3E-412491270IPR000571Zinc 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: 1270 aa     Download sequence    Send to blast
MENQQKQLQQ QESSVEGVDL MRVDHHQCEE IGVTAPTVVA GAVDEAAPAK RKRGRPPRGA  60
HANKTVSQTR PPPPPRKDEK EEDVCFICFD GGDLVLCDRR NCPKAYHPAC IKRDEAFFRT  120
AAKWNCGWHI CGTCQKGSSY MCYTCTFSVC KRCIKDADYV IVRGNMGLCG TCIKPIMLIE  180
NISQGDNEAV KVDFDDKLSW EYLFKVYWLC LKEELSLTVE ELTRANNPWK EIPYTVPKVE  240
SRNIHTLSKA CSSGNSDSDV VANGTKRRRT SDSPTVPSKL DAKNPSNILK KLPGDTNWAT  300
KELLEFLSVM RNGDTSVLSQ FDVQGLLLDY IKKKNLRDPN QKSQVVCDPM LVKLFGRQRV  360
GHFEMLKLLE SHFLIQEKPK EEKPKNGESS HTVRSQIEVD RAHDPLVRDR KRKTRRKTDD  420
SVQNENLDAF AAIDVHNINL IYLRRKFLET LLDDINKVHE KVVGTILRIK VSGSDQKLDI  480
YRLVQVVGTS KASASYQLGA KTTDVMLEIL NLDKREVISM DQLSDQNVTE DECKRLRQSI  540
KCGLNKRLTV GDILKTAAAL QAVRVNEVLE ADMLKLRHLR DRAKKLGRLE SPEERQRLLQ  600
EVPEVHTDPS MDPSHPSAED AVLGTRKPDN HIEVQSKSPK KKRDILNNLG NSPQKKYDTP  660
VLRSRKALHA TNKDECSKVD NNSADIQQSG KDDEENEIWH YRDPAGKTQG PFSMGQLRKW  720
KACGHFPPYL RIWKAHENPD ESVLLTDALE GRLDKATTLP SSSCHPQELK PSPHHSGSTG  780
VDVNCLQKNF TPVSTSATSS SSSTAAAIPN DPKEKQVATL VPCSGKVEDG NSVRPQPQVS  840
CPASMSVIPG HVVTPDVRET SVTDQSNPVR ADGKTLEDGA NSGSVPINCS VHAPNLNQEI  900
HFPDFPSPTP KSSPEDLEAQ AAETIQSLSS CVLVKGPSGV TWSTTATTTV DAPTTTTTTS  960
SVVVTGGQLP QVTQQNAVDL AAPSVKHIDL SVDHAAATHT SENSHVAHSS GWPAIVADPD  1020
ECDESVSDLL AEVEAMEQNG LPSSPTSTFH CDDDDDLMKG PEKDFFNPVL RMFLTHETCR  1080
MDVSQPSILD CVSAGKSSTG TEAKDNNLFS HCGTAGPELL LFAPPAPAST SQDLTLTTTA  1140
LRLGSETTVE TGLVERLPKY VSGVGLEPSL RSPSSHDPAR GNTERSPRGN GSQQRRSGGH  1200
SRDRQWWNNG HNSSLNNSHN NNRQWPYSSS HGYDHGSGSY TAHPPKGLKI CKFYESGHCK  1260
RGAACSFWHP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A1e-12821511581Histone-lysine N-methyltransferase NSD3
4gnd_C1e-12821511581Histone-lysine N-methyltransferase NSD3
4gne_A1e-12821511581Histone-lysine N-methyltransferase NSD3
4gnf_A1e-12821511581Histone-lysine N-methyltransferase NSD3
4gng_A1e-12821511581Histone-lysine N-methyltransferase NSD3
4gng_D1e-12821511581Histone-lysine N-methyltransferase NSD3
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1895080.0AC189508.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB088I08, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018439996.10.0PREDICTED: zinc finger CCCH domain-containing protein 44-like isoform X1
SwissprotQ9SD340.0C3H44_ARATH; Zinc finger CCCH domain-containing protein 44
TrEMBLM4F6X60.0M4F6X6_BRARP; Uncharacterized protein
STRINGBra036836.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM77872130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G51120.10.0DNA binding;zinc ion binding;nucleic acid binding;nucleic acid binding