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 RrC53_p3
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: 396aa    MW: 41648.2 Da    PI: 7.8445
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC53_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.42.1e-124873227
              -S---SGGGGTS--TTTTT-SS-SSS CS
   zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
              +++ C +++rtG C yG+rC+F+H++
  RrC53_p3 48 DEADCIYYLRTGACGYGSRCRFNHPR 73
              6799********************96 PP
2zf-CCCH30.56.4e-1099118827
               GGGGTS--TTTTT-SS-SSS CS
   zf-CCCH   8 ffartGtCkyGdrCkFaHgp 27 
               +f+rtGtCk+G++Ck++H++
  RrC53_p3  99 HFMRTGTCKFGATCKYHHPR 118
               8*****************96 PP
3zf-CCCH40.25.8e-13240264226
               -S---SGGGGTS--TTTTT-SS-SS CS
   zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
               ++++C++f+rtG Ck+G++C+++H+
  RrC53_p3 240 DQPECQYFMRTGDCKFGSSCRYHHP 264
               689*********************9 PP
4zf-CCCH32.91.1e-10286311227
               -S---SGGGGTS--TTTTT-SS-SSS CS
   zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
               + + C +fa+ G+Ck+G+ CkF H++
  RrC53_p3 286 GVAQCTHFAQHGICKFGPACKFDHSM 311
               6788********************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003567.5E-54673IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.9864674IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-104873IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-64974IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.9E-55273IPR000571Zinc finger, CCCH-type
SMARTSM003560.3895118IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.6998119IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-799118IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.155238266IPR000571Zinc finger, CCCH-type
SMARTSM003564.8E-6238265IPR000571Zinc finger, CCCH-type
PfamPF006423.0E-10240264IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.22E-6241267IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.9E-5244264IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.723284312IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-4284311IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-8286310IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.02E-5287312IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.6E-4290311IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 396 aa     Download sequence    Send to blast
MERYGRSGEE GSRSDPSLEW TTTTHGGQTG VQASMWRGGG ESYPERPDEA DCIYYLRTGA  60
CGYGSRCRFN HPRDRGAVIG GGVRGGGDGA LPERMGQPHF MRTGTCKFGA TCKYHHPRQG  120
GGGSVAPVTL SYLGYPLRPG EKECSYYLRT GQYSTIQFLS SSSLNLSYTL FIQRLNLSPL  180
NNMASLTAMP SPGTQPSIGP SSVYGMAPLS PSGTAYTGTY QPGGTSLTTS KEESFPQRPD  240
QPECQYFMRT GDCKFGSSCR YHHPLDAVQP KTGVLFSSIG LPLRPGVAQC THFAQHGICK  300
FGPACKFDHS MSSSLSYSPS ASSLTDMPVA PYPIGSSSLS GASAPVSSSD VPTTTQAVTA  360
AASAPMVSGL SSQEPAETSG DSASVSGSIE AKTSSS
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_006407949.10.0zinc finger CCCH domain-containing protein 34
SwissprotQ9SQU41e-145C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBLV4M3D60.0V4M3D6_EUTSA; Uncharacterized protein
STRINGXP_006407949.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17792786
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18550.11e-92C3H family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]