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 Rsa1.0_04384.1_g00003.1
Organism
Raphanus sativus
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: 401aa    MW: 44429.9 Da    PI: 8.2653
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04384.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.76.1e-114368126
                             --S---SGGGGTS--TTTTT-SS-SS CS
                  zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                             ++++ C+f++rtG C yG++C+++H+
  Rsa1.0_04384.1_g00003.1 43 PGERDCQFYLRTGLCGYGSSCRYNHP 68
                             5789*********************9 PP
2zf-CCCH36.67.5e-1287111327
                              S---SGGGGTS--TTTTT-SS-SSS CS
                  zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                              ++ C ++++tG CkyG++Ck++H++
  Rsa1.0_04384.1_g00003.1  87 QPDCEYYLKTGACKYGSTCKYHHPK 111
                              789********************96 PP
3zf-CCCH38.51.9e-12131156227
                              -S---SGGGGTS--TTTTT-SS-SSS CS
                  zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                              ++++C++++rtGtC++G  CkF+H++
  Rsa1.0_04384.1_g00003.1 131 GEKPCQYYLRTGTCRFGVACKFHHPQ 156
                              689*********************97 PP
4zf-CCCH26.61e-08263283525
                              --SGGGGTS--TTTTT-SS-S CS
                  zf-CCCH   5 lCrffartGtCkyGdrCkFaH 25 
                               Crff+ tGtCkyG+ Ck+ H
  Rsa1.0_04384.1_g00003.1 263 QCRFFMNTGTCKYGEHCKYTH 283
                              5******************88 PP
5zf-CCCH27.17.5e-09307332126
                              --S---SGGGGTS--TTTTT-SS-SS CS
                  zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                              ++++ C  f  +G+Ck+G++C+F H+
  Rsa1.0_04384.1_g00003.1 307 PGQPACASFKSYGICKFGPNCNFDHS 332
                              57899********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.3614270IPR000571Zinc finger, CCCH-type
SMARTSM003562.1E-54269IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-84468IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.63E-64670IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-44867IPR000571Zinc finger, CCCH-type
SMARTSM003565.1E-684111IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.80284112IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-987111IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.71E-689112IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-490110IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.98E-7128158IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.741129157IPR000571Zinc finger, CCCH-type
SMARTSM003567.2E-6129156IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-10131156IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.6E-6133156IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.573258286IPR000571Zinc finger, CCCH-type
SMARTSM003560.0021258285IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.67E-6261283IPR000571Zinc finger, CCCH-type
PfamPF006428.2E-7262283IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.7E-5264283IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-5302332IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.972306334IPR000571Zinc finger, CCCH-type
SMARTSM003562.4E-4306333IPR000571Zinc finger, CCCH-type
PfamPF006424.2E-7308332IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.5E-4312332IPR000571Zinc 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: 401 aa     Download sequence    Send to blast
MSDTHNVQSS TGSIRSSQKI EDAFRKMKVN NENGESDPYP DRPGERDCQF YLRTGLCGYG  60
SSCRYNHPTN LPQVMYYNEE LPERIGQPDC EYYLKTGACK YGSTCKYHHP KDRNGAEPIL  120
FNVLNLPMRQ GEKPCQYYLR TGTCRFGVAC KFHHPQPDNG HSTAAYPMST FPSPGLHHAG  180
GLAMMSAYGT LPRPQLTQTY VPVMVTPSQG LLPPQSWATY MGASNNSIYG VKNQVYYSGS  240
SGPMPMAVAL NGDLSERSEQ QQQCRFFMNT GTCKYGEHCK YTHLGVRVSP PQPLPNFINP  300
FVLPARPGQP ACASFKSYGI CKFGPNCNFD HSVLPYPPTG LPMPSSLPSP YPSHVSSNYQ  360
RISPSPSRTG SKAMHDDKPG VKKKMSGTET QDDDSEQVHD S
Functional Description ? help Back to Top
Source Description
UniProtPossesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269|PubMed:18582464}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04384.1_g00003.1
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_018440907.10.0PREDICTED: zinc finger CCCH domain-containing protein 3
SwissprotQ94AD90.0C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLA0A078IVE10.0A0A078IVE1_BRANA; BnaAnng12470D protein
STRINGBo5g005120.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM23802675
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G04990.20.0C3H 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]