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_08516.1_g00002.1
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: 1006aa    MW: 107635 Da    PI: 4.4298
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_08516.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH34.14.5e-117197127
                             --S---SGGGGTS--TTTTT-SS-SSS CS
                  zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                             +kt+lC++f+r G C++G++Ck+aHg+
  Rsa1.0_08516.1_g00002.1 71 FKTSLCSYFRRQGSCSHGATCKYAHGE 97
                             69***********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.103.3E-1465102IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.49E-869102IPR000571Zinc finger, CCCH-type
SMARTSM003561.2E-67097IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.37098IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-87197IPR000571Zinc finger, CCCH-type
CDDcd005905.67E-4165230No hitNo description
Gene3DG3DSA:3.30.70.3301.9E-5168230IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.94E-5168235IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168743.514256792IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533353.16E-41259284IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.16E-41316455IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.16E-41500612IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1502.0E-60506612IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138471.1E-8556607IPR025714Methyltransferase domain
CDDcd024401.95E-5558607No hitNo description
Gene3DG3DSA:3.40.50.1502.0E-60671730IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.16E-41680731IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059582.6E-5686726IPR010280(Uracil-5)-methyltransferase family
Gene3DG3DSA:3.40.50.1502.0E-60766791IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.16E-41775789IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006396Biological ProcessRNA processing
GO:0000166Molecular Functionnucleotide binding
GO:0008173Molecular FunctionRNA methyltransferase activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1006 aa     Download sequence    Send to blast
MTSSSSVDEL PSAAAETPTS QIPSDITSAP VDPIPASDDV EAVGEKRKRE DENTTNNLES  60
SDPNPTPSPW FKTSLCSYFR RQGSCSHGAT CKYAHGEKEL RQKPDNTWDP TSERGKKAKM  120
SENAVKEEEE EEVGDVMFTE EMMDENDGEG GGGEGVVHDL SLSKCLVHLP TKWQSDDLKT  180
FLREQGVEYK FAKKRRGMMV GFLTFENAEQ LKNGVEILEG KNVNNKSLKI ADVLPRTFDK  240
NGAKNPAAKL KSAREAVTPL ADLSYADQLE QKKASIAQML KKLTRNARKA CPNGKSLPEW  300
VLQSREIGGL SCKLEGIIES PLVNGYRNKC EFSTGYSVEG KLTVGFMLGN FSAGVTAVEE  360
AVNCPNISKL ACRYASIFQS FLEKSRLPVW NRFKSCGFWR QLTVREGSKP GVVSNDEDAD  420
SRIAEVLLMV QVCTKDTDEA EVATEFEELA KAFAEGAKAS SPPLPLTVLV VQDHVGISNV  480
APPDCPLRLL PIPVSDNGTH QDQSTNVLTE ARIHDHINNL RFSISPTAFF QVNTCAAEKL  540
YSLAGDWADL GPDTLLFDVC CGTGTIGLTL AHRVGMVIGI EMNASAVSDA ERNAKINGIS  600
NCKFICSKAC AEDVMSSLLT EYLDVSETEE AKPPSDDDLD KQNSSAEEIS NSEDVQKTEQ  660
KNSSEPERST KPQFKNVVAI VGSTSSPPRP GLHPDVIKAL RTHPRLKTLV YISCNPETLV  720
ANAIELCTPS FEKTGQENKG YRRQSRMGTA ALARHRAKKM PASEPFKPVK AMAVDLFPHT  780
DHCEMVMLLN RAPIAMAPTP SNAPMAIPAL CHPLSPLSSP PSCSNSPSSL ALMSSDSPSS  840
SGAGDGVGEG KYSVSSSESS SASSSDGAGA GGGESGDGDG DGEEEEDGEE EEDGDGDGEG  900
EEDGCGESGA GDGDGDGEED GCGESGDEAG GGRETVFGDG EGEECDSGEE EEEEDGGRGE  960
CAGAAARFVE VAGDGESSCA CKNSTFRKHI DRMTMKQSFL ATAMVI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A1e-1724462167371Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_08516.1_g00002.1
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_018438391.10.0PREDICTED: zinc finger CCCH domain-containing protein 24-like
RefseqXP_018441830.10.0PREDICTED: zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLA0A3P6BS610.0A0A3P6BS61_BRACM; Uncharacterized protein
STRINGBra011947.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM120031516
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28450.10.0C3H family protein
Publications ? help Back to Top
  1. Wang Y, et al.
    Identification of tRNA nucleoside modification genes critical for stress response and development in rice and Arabidopsis.
    BMC Plant Biol., 2017. 17(1): p. 261
    [PMID:29268705]