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 RrC10410_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: 317aa    MW: 36316.6 Da    PI: 7.4595
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC10410_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.24.8e-12170195126
                  --S---SGGGGTS--TTTTT-SS-SS CS
      zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                  y   +C+++ +tG+C yGd+CkF H+
  RrC10410_p2 170 YQPDICKDYKETGYCGYGDSCKFLHD 195
                  67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.44E-9168201IPR000571Zinc finger, CCCH-type
SMARTSM003568.4E-8169196IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.009169197IPR000571Zinc finger, CCCH-type
PfamPF006429.2E-10170195IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.9E-13170200IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.103.1E-11234295IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578504.5E-11245295No hitNo description
CDDcd001629.98E-7246295No hitNo description
SMARTSM001840.0013246291IPR001841Zinc finger, RING-type
PROSITE profilePS5008910.453246292IPR001841Zinc finger, RING-type
PROSITE patternPS005180261270IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 317 aa     Download sequence    Send to blast
MFSVCTLFKK PSKAKNIRKR RLDADEEEED GYSKRGSSVL NNLKKVAKPD SKLFFSSGPS  60
TSERPVFHYD SSKEIQVQND SRATATLETE TDFNQDARAI RERVLKRADE ALKGNRNNAS  120
DEKLYTGIHG YTDHKAGFRR EQTISSEKAG GSHGPLRASA HIRVSARFDY QPDICKDYKE  180
TGYCGYGDSC KFLHDRGDYK PGWQIEKEWE EAEKLRKRNK AMGVEDDDDD DGNNSEEDED  240
ALPFVCFICR EAFVDPVVTK CKHYFCEHCA LKFCVILMMQ HHTKNKKCFV CNQTTMGIFD  300
AAHEIKKRMA EERSKAQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M6e-6080317113325RING finger protein 113A
5z58_M6e-6080317113325RING finger protein 113A
6ff4_t6e-6080317113325RING finger protein 113A
6ff7_t6e-6080317113325RING finger protein 113A
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
GenBankAB4934190.0AB493419.1 Arabidopsis thaliana At1g01350 mRNA for hypothetical protein, partial cds, clone: RAAt1g01350.
GenBankAC0236280.0AC023628.3 Arabidopsis thaliana chromosome I BAC F6F3 genomic sequence, complete sequence.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018489508.10.0PREDICTED: zinc finger CCCH domain-containing protein 1-like
SwissprotQ8GX840.0C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBLR0GQF70.0R0GQF7_9BRAS; Uncharacterized protein
STRINGCagra.1968s0078.1.p0.0(Capsella grandiflora)
STRINGXP_006305264.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM110992634
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.10.0C3H family protein