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 GSBRNA2T00022552001
Common NameGSBRNA2T00022552001, LOC106347093
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C3H
Protein Properties Length: 429aa    MW: 46537.6 Da    PI: 7.5621
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00022552001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.42.9e-09103125326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                          ++lC+f+a  G C+yGd+Ck+ H+
  GSBRNA2T00022552001 103 EKLCKFWAD-GNCPYGDKCKYLHC 125
                          579******.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501039.162349IPR000571Zinc finger, CCCH-type
SMARTSM003560.0572548IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.798100127IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-6100124IPR000571Zinc finger, CCCH-type
SMARTSM003563.8E-6102126IPR000571Zinc finger, CCCH-type
PfamPF006426.4E-7103125IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-7104121IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:2.130.10.107.5E-17122236IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM003201.0E-5131170IPR001680WD40 repeat
SuperFamilySSF509781.19E-46132421IPR017986WD40-repeat-containing domain
PfamPF004004.7E-4134170IPR001680WD40 repeat
PROSITE profilePS5029421.384138340IPR017986WD40-repeat-containing domain
PROSITE profilePS5008213.015138179IPR001680WD40 repeat
PROSITE patternPS006780157171IPR019775WD40 repeat, conserved site
PRINTSPR003202.3E-6157171IPR020472G-protein beta WD-40 repeat
SMARTSM003201.3210247IPR001680WD40 repeat
Gene3DG3DSA:2.130.10.101.1E-31237421IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM003200.02254291IPR001680WD40 repeat
PfamPF004000.048259291IPR001680WD40 repeat
PROSITE profilePS5008211.979261300IPR001680WD40 repeat
PRINTSPR003202.3E-6278292IPR020472G-protein beta WD-40 repeat
SMARTSM003201.7E-4294331IPR001680WD40 repeat
PfamPF004000.0024296330IPR001680WD40 repeat
PRINTSPR003202.3E-6318332IPR020472G-protein beta WD-40 repeat
SMARTSM0032011335378IPR001680WD40 repeat
SMARTSM003204.6381418IPR001680WD40 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: 429 aa     Download sequence    Send to blast
MDLDMNGGNK RVFQRLGGAS SKDSNQKVCF HWRAGRCNRY PCPFLHRESP PPAPFPGSSS  60
STNNKRVADD DSGFAGSSHR RGPGSGNNTW GRFGGNRTVT KTEKLCKFWA DGNCPYGDKC  120
KYLHCWSQGD SFSLLTQLDG HQKVVTGIAL PSGSDKLYTA SKDETLRIWD CASGQCTGVL  180
NPGGEVGCMI SEGPWLFVGM PNLVKAWNIQ TNVDLSLTGP VGQVYSLVVG TDLLFAGTQD  240
GSILVWRYNT ATNCFDPAAS LTGHTLAVVS LYVGANRLYS GSMDNSIKVW SLDNLQCVQT  300
LTEHTSVVMS LICWDQFLLS CSLDNTVKIW AATQGGNLEV TYTHKEEYGV LALCGVHDAQ  360
AKPVLLCSCN DNSLHLYDLP SFTERGKILA KQEIRSIQIG PGGIFFTGDG TGQVKVWKWS  420
TQPTAIHP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A5e-211354218323Tako8
6g6n_A5e-211354218323Tako8
6g6n_B5e-211354218323Tako8
6g6n_C5e-211354218323Tako8
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00022552001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ2520630.0AJ252063.1 Arabidopsis thaliana partial mRNA for zfwd1 protein (zfwd1 gene).
GenBankBT0261220.0BT026122.1 Arabidopsis thaliana.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022550483.10.0zinc finger CCCH domain-containing protein 48 isoform X1
RefseqXP_022550484.10.0zinc finger CCCH domain-containing protein 48 isoform X1
SwissprotQ9FNZ20.0C3H48_ARATH; Zinc finger CCCH domain-containing protein 48
TrEMBLA0A078J4Y80.0A0A078J4Y8_BRANA; BnaC01g41630D protein
STRINGBra013894.1-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
AT4G25440.10.0zinc finger WD40 repeat protein 1
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]