PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10025700m
Common NameCARUB_v10025700mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C3H
Protein Properties Length: 807aa    MW: 88972.2 Da    PI: 5.8572
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10025700mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH31.33.5e-1086112127
                      --S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                      +kt+lC++f+r   C++G+ Ck+aHg+
  Carubv10025700m  86 WKTSLCSYFRREASCSHGSECKYAHGE 112
                      8************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.108.0E-1381117IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-883117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.03385113IPR000571Zinc finger, CCCH-type
SMARTSM003563.1E-485112IPR000571Zinc finger, CCCH-type
PfamPF006425.8E-886112IPR000571Zinc finger, CCCH-type
SuperFamilySSF549281.4E-6176243IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3304.6E-7176238IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168748.1261806IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533352.63E-44264289IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.63E-44321460IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.63E-44496617IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.8E-65508617IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138479.2E-9561628IPR025714Methyltransferase domain
CDDcd024401.07E-5563617No hitNo description
Gene3DG3DSA:3.40.50.1501.8E-65685745IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.63E-44693746IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059582.8E-8695741IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300701733IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.8E-65781806IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.63E-44790806IPR029063S-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: 807 aa     Download sequence    Send to blast
METSAIEING LPLLTKTLTP PAPAEPIPME TSSIEVLHPA PVEPIQSSDS NPTDNIESVG  60
EKRKRADDEK TNLESSEMKA TPSPWWKTSL CSYFRREASC SHGSECKYAH GEQELRMKPD  120
KTWDPTSERG KKTKAMKMSE KEEKEDEEVL FTEQMMESID DDGSVFDLSL SKCLVHLPRK  180
WQSDELKTFL GEQGVQYKSA KKRRGMMVGF VTFENAEQLQ SGVEILDGKT VNSNKLKIAD  240
VLPRTFDKNE TKKSVKCARE AVTPLADMPY ADQLEQKKAS IGQMLKKLAR SARKACPNGR  300
SLPEWVLTSR DRGGLACNFE GIIESPISNG YRNKCEFSVG LSLQGKPTVG FSLGSFCAGV  360
TAVEEPVNCP NVSQIALQYA SIFQKFIEKS KLQVWNRFEH SGFWRQFSVR EGRKPGVFSN  420
DEDAVTRIAE VMLIVQVCLT GSDEAEVATE YEEMAKAFAE GARASSPTLP LTVLVVQNHT  480
GISNVAPPDA PLQVLPIPMS DNGKNQEQAT NVLTEARIHD HINNLRFSIS PTAFFQVNTV  540
TAEKLYSVAG DWAGLGPDTL LFDVCCGTGT IGLTLAHRVG MVIGIEMNAS AVVDAERNAT  600
INGISNCKFI CSKAETVMSS LLKQYLDVTE MEEAKPVSNA NDKKIPSTEE MSNSEHVADQ  660
NLPPPNTQVE ELQDNAQKDS SSIEPEKAIK PQFRNVVAIV DPPRSGLHPA VIKALRTHPR  720
LKRLVYISCN PETLVANAIE LCTPSFDEAD RGNKTYRGNK NIGIAGLARR RAKSMPTSEP  780
FRPVKAMAVD LFPHTDHCEM VMLLER*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A7e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_A8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_B8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_C8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_D8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5zq0_A8e-1825962478372Uncharacterized RNA methyltransferase SP_1029
5zq1_A8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5zq8_A8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5zq8_B8e-1825962477371Uncharacterized RNA methyltransferase SP_1029
5zth_A8e-1825962478372Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10025700m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1282890.0AY128289.1 Arabidopsis thaliana At2g28450/T1B3.3 mRNA, complete cds.
GenBankBT0022930.0BT002293.1 Arabidopsis thaliana At2g28450/T1B3.3 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006293437.20.0zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLR0HM810.0R0HM81_9BRAS; Uncharacterized protein
STRINGXP_006293437.10.0(Capsella rubella)
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]