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 XP_009139264.1
Organism
Brassica rapa
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: 425aa    MW: 46224.2 Da    PI: 6.9783
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009139264.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.42.8e-09100122326
                     S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                     ++lC+f+a  G C+yGd+Ck+ H+
  XP_009139264.1 100 EKLCKFWAD-GNCPYGDKCKYLHC 122
                     579******.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501038.392045IPR000571Zinc finger, CCCH-type
SMARTSM003560.0742144IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.79897124IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-697121IPR000571Zinc finger, CCCH-type
SMARTSM003563.8E-699123IPR000571Zinc finger, CCCH-type
PfamPF006426.3E-7100122IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-7101119IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:2.130.10.106.0E-17120235IPR015943WD40/YVTN repeat-like-containing domain
SuperFamilySSF509784.12E-46128418IPR017986WD40-repeat-containing domain
SMARTSM003201.0E-5128167IPR001680WD40 repeat
PfamPF004004.7E-4131167IPR001680WD40 repeat
PROSITE profilePS5008213.015135176IPR001680WD40 repeat
PROSITE profilePS5029421.384135337IPR017986WD40-repeat-containing domain
PROSITE patternPS006780154168IPR019775WD40 repeat, conserved site
PRINTSPR003202.2E-6154168IPR020472G-protein beta WD-40 repeat
SMARTSM003201.3207244IPR001680WD40 repeat
Gene3DG3DSA:2.130.10.109.1E-32236418IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM003200.02251288IPR001680WD40 repeat
PfamPF004000.047256288IPR001680WD40 repeat
PROSITE profilePS5008211.979258297IPR001680WD40 repeat
PRINTSPR003202.2E-6275289IPR020472G-protein beta WD-40 repeat
SMARTSM003201.7E-4291328IPR001680WD40 repeat
PfamPF004000.0024293327IPR001680WD40 repeat
PRINTSPR003202.2E-6315329IPR020472G-protein beta WD-40 repeat
SMARTSM0032014332375IPR001680WD40 repeat
SMARTSM003204.6378415IPR001680WD40 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: 425 aa     Download sequence    Send to blast
MDLDMNGGNT RVFQRLSGVS NQKVCFHWRA GRCNRYPCPF LHRDSPPPAP FPGSSSSTNN  60
KRIADDDDSG FAGSSHRRGP GSGNNTWGRF GGNRTVTKTE KLCKFWADGN CPYGDKCKYL  120
HCWSQGDSFS LLTQLDGHQK VVTGIALPSG SDKLYTASKD ETLRIWDCAS GQCTGVLNPG  180
GEVGCMISEG PWLLVGMPNL VKAWNIQTNV DLSLTGPVGQ VYSLVVGTDL LFAGTQDGSI  240
LVWRYNTATN CFDPAASLTG HTLAVVSLYV GANRLYSGSM DNSIKVWSLD NLQCVQTLTE  300
HTSVVMSLIC WDQFLLSCSL DNTVKIWAAT QGGNLEVTYT HKEEYGVLAL CGVHDAEAKP  360
VLLCSCNDNS LHLYDLPSFT ERGKILAKQE IRSIQIGPGG IFFTGDGTGQ VKVWKWSTQP  420
TAIQP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A3e-211324188323Tako8
6g6n_A3e-211324188323Tako8
6g6n_B3e-211324188323Tako8
6g6n_C3e-211324188323Tako8
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009139264.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
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_009139264.10.0PREDICTED: zinc finger CCCH domain-containing protein 48
SwissprotQ9FNZ20.0C3H48_ARATH; Zinc finger CCCH domain-containing protein 48
TrEMBLM4DBN40.0M4DBN4_BRARP; Uncharacterized 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