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 RrC523_p5
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: 772aa    MW: 84607.3 Da    PI: 5.3615
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC523_p5genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH32.81.2e-106995127
               --S---SGGGGTS--TTTTT-SS-SSS CS
    zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
               +kt+lC++f+r G C++G +Ck+aHg+
  RrC523_p5 69 FKTSLCSYFRRQGSCSHGTTCKYAHGE 95
               69***********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.104.9E-1463100IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-867100IPR000571Zinc finger, CCCH-type
SMARTSM003563.0E-66895IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.1036896IPR000571Zinc finger, CCCH-type
PfamPF006424.3E-86995IPR000571Zinc finger, CCCH-type
CDDcd005904.16E-4162227No hitNo description
Gene3DG3DSA:3.30.70.3301.4E-5165227IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.32E-5165232IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168738.769253772IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533354.57E-43256281IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533354.57E-43319458IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533354.57E-43503615IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.0E-52509615IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138477.9E-9559610IPR025714Methyltransferase domain
CDDcd024401.42E-5561610No hitNo description
Gene3DG3DSA:3.40.50.1501.0E-52668730IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059585.1E-8676724IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533354.57E-43676725IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PROSITE patternPS012300684716IPR030390RNA methyltransferase TrmA, active site
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: 772 aa     Download sequence    Send to blast
MTSSSSVDEL PSAAAETLPS QIPSDTTPID PVPPSDDVEA VGEKRKREDE NTTNNLESSD  60
PNPTPSPWFK TSLCSYFRRQ GSCSHGTTCK YAHGEKELRQ KPDNTWDPTS ERGKKAKMSE  120
NAAKEEEEEV GDVMFTEEMM DENDGEGGGG DGVVHDLSLS KCLVHLPTKW QSDDLKTFLR  180
EQGVEYKFAK KRRGMMVGFL TFENAEQLKN GVEILEGKNV NNKSLKIADV LPRTFDKNGA  240
KNPAAKLKSA REAVTPLADL SYADQLEQKK ASIAQMLKKL VSELSHTRNA RKACPNGKSL  300
PEWVLQSREI GGLSCKLEGI IESPLVNGYR NKCEFSTGYS VEGKLTVGFM LGNFSAGVTA  360
VEEAVNCPNI SKLACRYASI FQSFLEKSRL PVWNRFKSCG FWRQLTVREG SKPGVVSNDE  420
DADSRIAEVL LMVQVCTKDT DEAEVATEFE ELAKAFAEGA RASSPPLPLT VLVVQDHVGI  480
SNVAPPDCPL RLLPIPVSDN GTHQDQSTNV LTEARIHDHI NNLRFSISPT AFFQVNTCAA  540
EKLYSLAGDW ADLGPDTLLF DVCCGTGTIG LTLAHRVGMV IGIEMNASAV SDAERNAKIN  600
GISNCKFICS KACAEDVMSS LLTEYLDVSE TEEAKPPSDD DLDKQNSSAE EISNSEDVQK  660
TEQKNSEPER STKPQFKNVV AIVDPPRPGL HPDVIKALRT HPRLKTLVYI SCNPETLVAN  720
AIELCTPSFE KTGQENKGYR RQSRMGTAAL ARHRAKKMPA SEPFKPGQSH GR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5xj2_A2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5xj2_B2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5xj2_C2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5xj2_D2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5zq0_A2e-18329737127429Uncharacterized RNA methyltransferase SP_1029
5zq1_A2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5zq8_A2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5zq8_B2e-18329737126428Uncharacterized RNA methyltransferase SP_1029
5zth_A2e-18329737127429Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
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]