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 RrC4844_p1
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: 132aa    MW: 15894.4 Da    PI: 6.511
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4844_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH361.2e-111137127
                --S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                ++t+ C+f++rtG C yG++C+++H++
  RrC4844_p1 11 PGTKDCQFYLRTGRCGYGETCRYNHPK 37
                689**********************96 PP
2zf-CCCH30.46.9e-104668326
                S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
                ++ C++++r G CkyG+rC F H 
  RrC4844_p1 46 MPKCKYYLR-GKCKYGSRCDFDHL 68
                689******.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003562.4E-61037IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.5E-71037IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.8821038IPR000571Zinc finger, CCCH-type
PfamPF006424.6E-91137IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.0E-51337IPR000571Zinc finger, CCCH-type
SMARTSM003564.6E-44369IPR000571Zinc finger, CCCH-type
PROSITE profilePS50103154370IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.63E-64567IPR000571Zinc finger, CCCH-type
PfamPF006424.6E-74568IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-54867IPR000571Zinc 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: 132 aa     Download sequence    Send to blast
MTESSEYLVR PGTKDCQFYL RTGRCGYGET CRYNHPKEIP PEKFNMPKCK YYLRGKCKYG  60
SRCDFDHLKE RDGAEHTRQK HRQEDNEKQS TEAEDNLQDE NLRETQENDN DQQNREEQRE  120
REILRGRGER LV
Functional Description ? help Back to Top
Source Description
UniProtPossesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269|PubMed:18582464}.
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_013639475.14e-60PREDICTED: putative zinc finger CCCH domain-containing protein 9
SwissprotQ94AD93e-21C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLA0A078JLS73e-59A0A078JLS7_BRANA; BnaCnng50350D protein
TrEMBLA0A3P6EVQ53e-59A0A3P6EVQ5_BRAOL; Uncharacterized protein
STRINGBo5g060890.16e-60(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15746914
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G04990.23e-23C3H 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]