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 XP_009103688.1
Organism
Brassica rapa
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: 783aa    MW: 85913.2 Da    PI: 5.2196
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009103688.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH34.63.3e-116490127
                    --S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                    +kt+lC++f+r G C++G+ Ck+aHg+
  XP_009103688.1 64 FKTSLCSYFRRQGSCSHGAACKYAHGE 90
                    69***********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.107.7E-135993IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.45E-86293IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-66390IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.456391IPR000571Zinc finger, CCCH-type
PfamPF006426.7E-96490IPR000571Zinc finger, CCCH-type
CDDcd005904.23E-4154219No hitNo description
Gene3DG3DSA:3.30.70.3301.4E-5157219IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.34E-5157224IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168748.521245783IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533351.19E-45248273IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.19E-45305444IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.19E-45489601IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.9E-65495601IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138473.2E-10545611IPR025714Methyltransferase domain
CDDcd024402.16E-6547601No hitNo description
Gene3DG3DSA:3.40.50.1501.9E-65662722IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.19E-45670723IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059589.4E-8674718IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300678710IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.9E-65758783IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.19E-45767781IPR029063S-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: 783 aa     Download sequence    Send to blast
MTSSSLDELP SAAETLTSQI PSDTAPIDPI PSSNDDVEAV GEKRKRDDDE KTTNLESSTP  60
SPWFKTSLCS YFRRQGSCSH GAACKYAHGE NELLQKPDNT WDPTSERGKK AKMMSDSAVK  120
EEEEVGDVMF TEEMMDDNDG GGDGGVHDLS LSKCLVHLPT KWQSDDLKTF LREQGVEYKF  180
AKKRRGMMVG FLTFENAEQL KNGVEILEGK NVNNKSLKIA DVLPRTFDKN GAKNPAAKLK  240
SAREAVTPLA DLSYADQLEQ KKASIAQMLK KLTRNARKAC PNGKSVPEWV LQSREIGGLS  300
CKLEGIIESP LVNGYRNKCE FSTGYSVEGK LTVGFMLGNF SAGVTAVEEA VNCPNISKLA  360
CRYASIFQSF LEKSRLPVWN RFKSCGFWRQ LTVREGSKPG VVSSDEDADS RIAEVMLMVQ  420
VCSTDTDEAE VATEFEEMAK AFAEGARAST PPLPLTVLVV QDHVGISNVA PPDCPLRLLP  480
IPVSDNGTHQ DQSTNVLTEA RIHDHINNLR FSISPTAFFQ VNTCAAEKLY SLAGDWADLG  540
PDTLLFDVCC GTGTIGLTLA HRVGMVIGIE MNASAVSDAE RNAKINGISN CKFICSKAED  600
VMSSLLTEYV DVSETEEAKP PSDDLDKQNS SAEEMSNPED VPPLNIQEAV QKTEQKDSSS  660
EPERSTKPQF KNVVAIVDPP RPGLHPDVIK ALRTHPRLKT LVYISCNPET LVANAIELCT  720
PSFEKTGQEN KGYRRQSRMG TAALARHRAK KMPASEPFKP VKAMAVDLFP HTDHCEMVML  780
LNR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A2e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_A3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_B3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_C3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_D3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5zq1_A3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5zq8_A3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
5zq8_B3e-2023360867371Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009103688.1
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_009103688.10.0PREDICTED: zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLM4D6390.0M4D639_BRARP; 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]