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 GSBRNA2T00089987001
Common NameGSBRNA2T00089987001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C3H
Protein Properties Length: 766aa    MW: 84215.5 Da    PI: 6.1914
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00089987001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH35.41.8e-116591127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         +kt+lC++f+r G C++Gd Ck+aHg+
  GSBRNA2T00089987001 65 FKTSLCSYFRRQGSCSHGDACKYAHGE 91
                         69***********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.5E-146096IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.59E-96396IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.9486492IPR000571Zinc finger, CCCH-type
SMARTSM003562.7E-76491IPR000571Zinc finger, CCCH-type
PfamPF006423.1E-96591IPR000571Zinc finger, CCCH-type
CDDcd005906.17E-4136201No hitNo description
SuperFamilySSF549281.6E-5139207IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3301.2E-5139201IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168746.273227765IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533357.47E-44230255IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533357.47E-44287426IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533357.47E-44471583IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1503.0E-63477583IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138475.9E-9527579IPR025714Methyltransferase domain
CDDcd024401.41E-5529578No hitNo description
Gene3DG3DSA:3.40.50.1503.0E-63644704IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533357.47E-44652705IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059587.4E-8652700IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300660692IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1503.0E-63740765IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533357.47E-44749763IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001510Biological ProcessRNA methylation
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: 766 aa     Download sequence    Send to blast
MTSSSVDELP SAAETLTYQI PSDTTPIDPI PSSNDVEAVG EKRKRDDDDD EKTTNLESST  60
PSPWFKTSLC SYFRRQGSCS HGDACKYAHG EKELRQKPDN TWDPTSERGK KVKMMSEKSA  120
EEEEEGGVHD LSLSKCLVHL PTKWQSDDIK TFLREQGVEY KFAKKRRGMM VGFLTFENAE  180
QLKNGVEVLE GKNVNNKSLK IANVLPRTFD KNGAKNPAAK LKSAREAVTP LADLSYADQL  240
EQKKASISQM LKKLTRNARK ACPNGKSLPE WVLQSREIGG LSCKLEGIIE SPLVNGYRNK  300
CEFSTGYSVE GKLTVGFMLG NFSAGVTAVE EAVNCPNISK LACRYASIFQ SFLEKSRLPV  360
WNRFKSCGFW RQLTVREGSK PGVVSSDEDA DSRIAEVMLM VQVCSTDTDE AEVATEFEQM  420
AKAFAEGARA SSPPLPLTVL VVQDHVGISN VAPPDCPLRL LPIPVSDNGT HQDQSTNVLT  480
EARIHDHINN LRFSISPTAF FQVNTCAAEK LYSLAGDWAD LGPDTLLFDV CCGTGTIGLT  540
LAHRVGMVIG IEMNASAVSD AERNAKINGI SNCKFICSKA CAEDVMSSLL TEYLDVSETE  600
EAKPLSGDLE KQISSAEEIS NSEDAPPANI QEVQKTEQKD SSETERSTKR QFKNVVAIVD  660
PPRPGLHPDV IKALRTHPRL KTLVYISCNP ETLVANAIEL CTPSFEKTGQ ENKGYRRQSK  720
MGTAALARHR AKKMPASEPF KPVKAMAVDL FPHTDHCEMV MLLNR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A1e-1921559267371Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00089987001
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_013635862.10.0PREDICTED: zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLA0A078FTS40.0A0A078FTS4_BRANA; BnaC04g15760D 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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. 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]