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 RrC14398_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: 165aa    MW: 18492.9 Da    PI: 5.6408
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC14398_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.34.7e-124268127
                 --S---SGGGGTS--TTTTT-SS-SSS CS
      zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                 ++++ C+++ rtG C++G++C+F+H+p
  RrC14398_p2 42 PGEPDCSYYIRTGLCRFGSTCRFNHPP 68
                 5789*********************97 PP
2zf-CCCH39.68.5e-1395119327
                  S---SGGGGTS--TTTTT-SS-SSS CS
      zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                  ++ C +f+rtG+Ck+G++CkF+H++
  RrC14398_p2  95 EVDCAYFLRTGHCKFGATCKFNHPQ 119
                  578********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.9714169IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-54168IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-84368IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-64669IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-44767IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-493119IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.38993120IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-1095119IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.23E-697121IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.5E-598118IPR000571Zinc 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: 165 aa     Download sequence    Send to blast
MDLNAGVPMS SLSPLMINQD AMWQMNLSSD ETMELGSYPV RPGEPDCSYY IRTGLCRFGS  60
TCRFNHPPDR DLVIATARMK GEYPERIGQP ECENEVDCAY FLRTGHCKFG ATCKFNHPQP  120
QPTTNLMVPA SGQQQSYSWS RASFIASPRW QDPSGYTPLL MPQGV
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1179781e-110AK117978.1 Arabidopsis thaliana At3g02830 mRNA for putative zinc finger protein 1 (zfn1), complete cds, clone: RAFL19-18-D10.
GenBankBT0259661e-110BT025966.1 Arabidopsis thaliana At3g02830 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009118604.11e-104PREDICTED: zinc finger CCCH domain-containing protein 33-like isoform X1
SwissprotQ8GXX71e-95C3H33_ARATH; Zinc finger CCCH domain-containing protein 33
TrEMBLA0A078IWI81e-103A0A078IWI8_BRANA; BnaAnng12770D protein
TrEMBLA0A078JQF51e-104A0A078JQF5_BRANA; BnaCnng56860D protein
STRINGBo1g155120.11e-101(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33892864
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.16e-98zinc finger protein 1
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]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]