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 RrC5734_p2
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: 427aa    MW: 46322.5 Da    PI: 7.9896
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5734_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.32e-06103124426
                 ---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                 + Cr++   G C++Gd+C++ H+
  RrC5734_p2 103 KVCRYWVD-GSCSHGDKCRYLHC 124
                 68******.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.8032652IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-42651IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.33399126IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.04E-6100123IPR000571Zinc finger, CCCH-type
SMARTSM003562.9E-4101125IPR000571Zinc finger, CCCH-type
PfamPF006422.9E-4102124IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.5E-5103122IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:2.130.10.107.5E-45123419IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM003207.2E-7130169IPR001680WD40 repeat
SuperFamilySSF509784.19E-46131420IPR017986WD40-repeat-containing domain
PfamPF004001.6E-5133169IPR001680WD40 repeat
PROSITE profilePS5029420.909137339IPR017986WD40-repeat-containing domain
PROSITE profilePS5008214.418137178IPR001680WD40 repeat
PROSITE patternPS006780156170IPR019775WD40 repeat, conserved site
PRINTSPR003206.6E-7156170IPR020472G-protein beta WD-40 repeat
SMARTSM003205.4209246IPR001680WD40 repeat
SMARTSM003200.017253290IPR001680WD40 repeat
PfamPF004000.1258290IPR001680WD40 repeat
PROSITE profilePS5008211.511260299IPR001680WD40 repeat
PRINTSPR003206.6E-7277291IPR020472G-protein beta WD-40 repeat
SMARTSM003201.9E-4293330IPR001680WD40 repeat
PfamPF004000.0045295329IPR001680WD40 repeat
PRINTSPR003206.6E-7317331IPR020472G-protein beta WD-40 repeat
SMARTSM003206.2334377IPR001680WD40 repeat
SMARTSM003203.4380417IPR001680WD40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 427 aa     Download sequence    Send to blast
MDFDLNGGNK RIFNRLGGSN RPAAKGSRQE VCSYWRAGRC NRNPCQFLHR ELPGPVSNKR  60
VADEPGFAGP SHRRGPGFNG SASGNTWGRF GGNSRTVVTK TEKVCRYWVD GSCSHGDKCR  120
YLHCWSKGDS FSLLTQLDGH EKLVSGIALP SGSDKLYTGS KDGTIRVWDC ASGQCTSVLS  180
LGAEVGCVIN EGPWLLVGMP NLVKAWNMET SVDQNLSGPV GQVYSLVVGT DLLFAGTQDG  240
SILAWRYNAA TNCFEPAASL KGHTLAVVTL YVGANRLYSG SMDKSIKVWS LDNLQCIQTL  300
TDHTSVVMSL ICWDQFLLSC SLDNTVKIWA AVEGGNLEVT YTHKEEHGVL ALCGVHDAEA  360
KPVLLCSCND STLRLYDLPS FTERGKIFAK QEIRSIQIGP GGIFFTGDGT GQVKVWKWST  420
APTTAMS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A5e-211344238320Tako8
6g6n_A5e-211344238320Tako8
6g6n_B5e-211344238320Tako8
6g6n_C5e-211344238320Tako8
Search in ModeBase
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_018456761.10.0PREDICTED: zinc finger CCCH domain-containing protein 63
SwissprotQ9FNZ10.0C3H63_ARATH; Zinc finger CCCH domain-containing protein 63
TrEMBLM4EK320.0M4EK32_BRARP; Uncharacterized protein
STRINGBra029149.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM18392869
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51980.10.0C3H family protein