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_52763.1_g00001.1
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: 78aa    MW: 8697.75 Da    PI: 8.1288
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_52763.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH39.59.1e-13328227
                             -S---SGGGGTS--TTTTT-SS-SSS CS
                  zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                             +++ C +++rtG C yG++C+F+H+p
  Rsa1.0_52763.1_g00001.1  3 DEPDCVYYLRTGVCGYGSKCQFNHPP 28
                             7899********************97 PP
2zf-CCCH41.42.4e-134974227
                             -S---SGGGGTS--TTTTT-SS-SSS CS
                  zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                             +++ C++f+rtG Ck+G++Ck++H++
  Rsa1.0_52763.1_g00001.1 49 GQPVCQHFMRTGDCKFGASCKYHHPR 74
                             5799********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.22129IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-5128IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-9328IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.49E-7629IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.1E-7727IPR000571Zinc finger, CCCH-type
SMARTSM003561.2E-54774IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.764775IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-74874IPR000571Zinc finger, CCCH-type
PfamPF006428.5E-114974IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.8E-65274IPR000571Zinc 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: 78 aa     Download sequence    Send to blast
RPDEPDCVYY LRTGVCGYGS KCQFNHPPNR PPVSGDLRTE AGEVPERMGQ PVCQHFMRTG  60
DCKFGASCKY HHPRQGSG
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_52763.1_g00001.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2301753e-64AK230175.1 Arabidopsis thaliana mRNA for zinc finger like protein, complete cds, clone: RAFL22-89-O03.
GenBankBT0108863e-64BT010886.1 Arabidopsis thaliana At5g18550 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018463879.17e-49PREDICTED: zinc finger CCCH domain-containing protein 58-like
RefseqXP_018463880.17e-49PREDICTED: zinc finger CCCH domain-containing protein 58-like
SwissprotQ6NPN31e-43C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBLM4CQH64e-43M4CQH6_BRARP; Uncharacterized protein
STRINGBra006465.1-P7e-44(Brassica rapa)
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
AT5G18550.14e-46C3H 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]